Citrus Sinensis ID: 044786

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340
Protein Sequence
MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN
Secondary Structure (PSIPRED)
cccccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEcHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccEEHHHHHHHHHHccccHHHHHHHHccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcHHccc
Coil and Loop (DISEMBL)
mdnlclpittdmYTCLIKectfqkdsAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARqlfdemplrdfnsWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLgssrnisltGSLINFygkfrcledaDFVFSQLKRHNTVVWTAKIVnncreghfhQVFNDFKEMGRERIKKNSYTFSSVLKacggvdddgncgrqMHANIVKIGLESDEYVQCGlvdmygkcrllRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSsisaskin
Flexible Loop (DISEMBL)
MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIvdkkniaswNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACssisaskin
Low Complexity Region (SEG)
MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN
Disordered region (IsUnstruct)
***LCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACS********
Disordered Region (DISOPRED)
****CLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN
Disordered Region (DISEMBL)
MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN
Disordered Region (DISPRO)
*****LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISAS***
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN
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	340	2.2.26 [Sep-21-2011]
Q9C6R9	409	Pentatricopeptide repeat-	yes	no	0.961	0.799	0.501	1e-94
Q0WNP3	617	Pentatricopeptide repeat-	no	no	0.914	0.504	0.307	2e-36
Q9LFI1	768	Pentatricopeptide repeat-	no	no	0.9	0.398	0.307	3e-34
O23169	691	Pentatricopeptide repeat-	no	no	0.944	0.464	0.277	3e-34
Q9CAA8	743	Putative pentatricopeptid	no	no	0.944	0.432	0.286	1e-33
Q9LIQ7	633	Pentatricopeptide repeat-	no	no	0.932	0.500	0.276	2e-33
Q9LYU9	752	Pentatricopeptide repeat-	no	no	0.929	0.420	0.28	1e-32
Q9LIC3	628	Putative pentatricopeptid	no	no	0.773	0.418	0.322	6e-32
O64705	621	Pentatricopeptide repeat-	no	no	0.720	0.394	0.35	7e-32
Q9SX45	596	Pentatricopeptide repeat-	no	no	0.9	0.513	0.301	4e-31

>sp|Q9C6R9|PPR66_ARATH Pentatricopeptide repeat-containing protein At1g31790 OS=Arabidopsis thaliana GN=PCMP-A1 PE=2 SV=1

 Score =  347 bits (889), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 166/331 (50%), Positives = 227/331 (68%), Gaps = 4/331 (1%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD+L LP   D+Y+CL KE   + D  GA EL  HI K  +I+PT+ F+NRLLLMHVSCG
Sbjct: 79  MDSLSLPGNEDIYSCLAKESARENDQRGAHELQVHIMKS-SIRPTITFINRLLLMHVSCG 137

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
           +LD  RQ+FD MP RDF+SWA++ +G +++ DY++   LF  M+K  +     + P+WI+
Sbjct: 138 RLDITRQMFDRMPHRDFHSWAIVFLGCIEMGDYEDAAFLFVSMLKHSQKGAFKI-PSWIL 196

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLG--SSRNISLTGSLINFYGKFRCLEDADFVFSQL 178
            CVLKAC    + ELGKQVH L  KLG     +  L+GSLI FYG+FRCLEDA+ V  QL
Sbjct: 197 GCVLKACAMIRDFELGKQVHALCHKLGFIDEEDSYLSGSLIRFYGEFRCLEDANLVLHQL 256

Query: 179 KRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCG 238
              NTV W AK+ N+ REG F +V  DF EMG   IKKN   FS+VLKAC  V D G  G
Sbjct: 257 SNANTVAWAAKVTNDYREGEFQEVIRDFIEMGNHGIKKNVSVFSNVLKACSWVSDGGRSG 316

Query: 239 RQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIR 298
           +Q+HAN +K+G ESD  ++C L++MYGK   ++DAE+VF+   D+ +++ WNAM+  Y++
Sbjct: 317 QQVHANAIKLGFESDCLIRCRLIEMYGKYGKVKDAEKVFKSSKDETSVSCWNAMVASYMQ 376

Query: 299 NGLYVEATKFLYLMKASGIQIQESLINDLRI 329
           NG+Y+EA K LY MKA+GI+  ++L+N+  +
Sbjct: 377 NGIYIEAIKLLYQMKATGIKAHDTLLNEAHL 407

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WNP3|PP319_ARATH Pentatricopeptide repeat-containing protein At4g18520 OS=Arabidopsis thaliana GN=PCMP-A2 PE=2 SV=1

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 98/319 (30%), Positives = 164/319 (51%), Gaps = 8/319 (2%)

Query: 16  LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR 75
           ++K C+ +K      ++ + + KR+ IK  +     L+ M+  CG++   R++FD M  R
Sbjct: 290 ILKACSEEKALRFGRQVHSLVVKRM-IKTDVFVGTSLMDMYAKCGEISDCRKVFDGMSNR 348

Query: 76  DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMEL 135
           +  +W  +I  +      +E I+LF  +MKR+     L+     +V +L+AC     + L
Sbjct: 349 NTVTWTSIIAAHAREGFGEEAISLF-RIMKRRH----LIANNLTVVSILRACGSVGALLL 403

Query: 136 GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCR 195
           GK++H  + K    +N+ +  +L+  Y K     DA  V  QL   + V WTA I     
Sbjct: 404 GKELHAQIIKNSIEKNVYIGSTLVWLYCKCGESRDAFNVLQQLPSRDVVSWTAMISGCSS 463

Query: 196 EGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEY 255
            GH  +  +  KEM +E ++ N +T+SS LKAC    +    GR +H+   K    S+ +
Sbjct: 464 LGHESEALDFLKEMIQEGVEPNPFTYSSALKACAN-SESLLIGRSIHSIAKKNHALSNVF 522

Query: 256 VQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS 315
           V   L+ MY KC  + +A RVF+ +  +KN+ SW AM++GY RNG   EA K +Y M+A 
Sbjct: 523 VGSALIHMYAKCGFVSEAFRVFDSM-PEKNLVSWKAMIMGYARNGFCREALKLMYRMEAE 581

Query: 316 GIQIQESLINDLRIACSSI 334
           G ++ + +   +   C  I
Sbjct: 582 GFEVDDYIFATILSTCGDI 600

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFI1|PP280_ARATH Pentatricopeptide repeat-containing protein At3g53360, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E86 PE=2 SV=1

 Score =  145 bits (367), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 97/315 (30%), Positives = 150/315 (47%), Gaps = 9/315 (2%)

Query: 3   NLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQL 62
           N    I    Y  LI  C+  +  A   ++ +HI    N K   +  N +L M+  CG L
Sbjct: 60  NSSFKIRLRTYISLICACSSSRSLAQGRKIHDHILNS-NCKYDTILNNHILSMYGKCGSL 118

Query: 63  DTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC 122
             AR++FD MP R+  S+  +I GY       E I L+ +M++       LV   +    
Sbjct: 119 RDAREVFDFMPERNLVSYTSVITGYSQNGQGAEAIRLYLKMLQED-----LVPDQFAFGS 173

Query: 123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN 182
           ++KAC  + ++ LGKQ+H  + KL SS ++    +LI  Y +F  + DA  VF  +   +
Sbjct: 174 IIKACASSSDVGLGKQLHAQVIKLESSSHLIAQNALIAMYVRFNQMSDASRVFYGIPMKD 233

Query: 183 TVVWTAKIVNNCREGHFHQVFNDFKEMGRERI-KKNSYTFSSVLKACGGVDDDGNCGRQM 241
            + W++ I    + G   +  +  KEM    +   N Y F S LKAC  +    + G Q+
Sbjct: 234 LISWSSIIAGFSQLGFEFEALSHLKEMLSFGVFHPNEYIFGSSLKACSSLLRP-DYGSQI 292

Query: 242 HANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGL 301
           H   +K  L  +    C L DMY +C  L  A RVF+ I ++ + ASWN ++ G   NG 
Sbjct: 293 HGLCIKSELAGNAIAGCSLCDMYARCGFLNSARRVFDQI-ERPDTASWNVIIAGLANNGY 351

Query: 302 YVEATKFLYLMKASG 316
             EA      M++SG
Sbjct: 352 ADEAVSVFSQMRSSG 366

Arabidopsis thaliana (taxid: 3702)

>sp|O23169|PP353_ARATH Pentatricopeptide repeat-containing protein At4g37170 OS=Arabidopsis thaliana GN=PCMP-H5 PE=3 SV=1

 Score =  145 bits (367), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 98/353 (27%), Positives = 170/353 (48%), Gaps = 32/353 (9%)

Query: 7   PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTAR 66
           P +T  Y  LI+ C+  +      ++  HIR      P ++  NRLL M+  CG L  AR
Sbjct: 84  PAST--YCNLIQVCSQTRALEEGKKVHEHIRTS-GFVPGIVIWNRLLRMYAKCGSLVDAR 140

Query: 67  QLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKR----------------KKGH 110
           ++FDEMP RD  SW VM+ GY +V   +E   LF EM ++                +   
Sbjct: 141 KVFDEMPNRDLCSWNVMVNGYAEVGLLEEARKLFDEMTEKDSYSWTAMVTGYVKKDQPEE 200

Query: 111 MLLVFPAWIIVCVLKACVCTMNMEL-----------GKQVHGLLFKLGSSRNISLTGSLI 159
            L+++     V   +  + T+++ +           GK++HG + + G   +  L  SL+
Sbjct: 201 ALVLYSLMQRVPNSRPNIFTVSIAVAAAAAVKCIRRGKEIHGHIVRAGLDSDEVLWSSLM 260

Query: 160 NFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSY 219
           + YGK  C+++A  +F ++   + V WT+ I    +   + + F+ F E+     + N Y
Sbjct: 261 DMYGKCGCIDEARNIFDKIVEKDVVSWTSMIDRYFKSSRWREGFSLFSELVGSCERPNEY 320

Query: 220 TFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFEL 279
           TF+ VL AC  +  +   G+Q+H  + ++G +   +    LVDMY KC  +  A+ V + 
Sbjct: 321 TFAGVLNACADLTTE-ELGKQVHGYMTRVGFDPYSFASSSLVDMYTKCGNIESAKHVVDG 379

Query: 280 IVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACS 332
              K ++ SW +++ G  +NG   EA K+  L+  SG +       ++  AC+
Sbjct: 380 -CPKPDLVSWTSLIGGCAQNGQPDEALKYFDLLLKSGTKPDHVTFVNVLSACT 431

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g68930 OS=Arabidopsis thaliana GN=PCMP-H22 PE=3 SV=1

 Score =  144 bits (362), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 104/363 (28%), Positives = 161/363 (44%), Gaps = 42/363 (11%)

Query: 5   CLPIT-TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLD 63
            LP   T +Y  ++      K S  A  + + I +     P L   N LLL +   G + 
Sbjct: 35  ALPYPETFLYNNIVHAYALMKSSTYARRVFDRIPQ-----PNLFSWNNLLLAYSKAGLIS 89

Query: 64  TARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV 123
                F+++P RD  +W V+I GY         +  +  MM+    ++  V     ++ +
Sbjct: 90  EMESTFEKLPDRDGVTWNVLIEGYSLSGLVGAAVKAYNTMMRDFSANLTRV----TLMTM 145

Query: 124 LKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNT 183
           LK      ++ LGKQ+HG + KLG    + +   L+  Y    C+ DA  VF  L   NT
Sbjct: 146 LKLSSSNGHVSLGKQIHGQVIKLGFESYLLVGSPLLYMYANVGCISDAKKVFYGLDDRNT 205

Query: 184 VV------------------------------WTAKIVNNCREGHFHQVFNDFKEMGRER 213
           V+                              W A I    + G   +    F+EM  + 
Sbjct: 206 VMYNSLMGGLLACGMIEDALQLFRGMEKDSVSWAAMIKGLAQNGLAKEAIECFREMKVQG 265

Query: 214 IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDA 273
           +K + Y F SVL ACGG+    N G+Q+HA I++   +   YV   L+DMY KC+ L  A
Sbjct: 266 LKMDQYPFGSVLPACGGLGAI-NEGKQIHACIIRTNFQDHIYVGSALIDMYCKCKCLHYA 324

Query: 274 ERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSS 333
           + VF+ +  +KN+ SW AM+VGY + G   EA K    M+ SGI      +     AC++
Sbjct: 325 KTVFDRM-KQKNVVSWTAMVVGYGQTGRAEEAVKIFLDMQRSGIDPDHYTLGQAISACAN 383

Query: 334 ISA 336
           +S+
Sbjct: 384 VSS 386

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIQ7|PP252_ARATH Pentatricopeptide repeat-containing protein At3g24000, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H87 PE=2 SV=1

 Score =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 91/329 (27%), Positives = 161/329 (48%), Gaps = 12/329 (3%)

Query: 6   LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTA 65
           +P     Y  L+K+CT  K       +  HI + +  +  ++  N LL M+  CG L+ A
Sbjct: 56  IPADRRFYNTLLKKCTVFKLLIQGRIVHAHILQSI-FRHDIVMGNTLLNMYAKCGSLEEA 114

Query: 66  RQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK 125
           R++F++MP RDF +W  +I GY       + +  F +M++   G+    F    +  V+K
Sbjct: 115 RKVFEKMPQRDFVTWTTLISGYSQHDRPCDALLFFNQMLRF--GYSPNEF---TLSSVIK 169

Query: 126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVV 185
           A         G Q+HG   K G   N+ +  +L++ Y ++  ++DA  VF  L+  N V 
Sbjct: 170 AAAAERRGCCGHQLHGFCVKCGFDSNVHVGSALLDLYTRYGLMDDAQLVFDALESRNDVS 229

Query: 186 WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDG--NCGRQMHA 243
           W A I  + R     +    F+ M R+  + + ++++S+  AC      G    G+ +HA
Sbjct: 230 WNALIAGHARRSGTEKALELFQGMLRDGFRPSHFSYASLFGACSST---GFLEQGKWVHA 286

Query: 244 NIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYV 303
            ++K G +   +    L+DMY K   + DA ++F+ +  K+++ SWN++L  Y ++G   
Sbjct: 287 YMIKSGEKLVAFAGNTLLDMYAKSGSIHDARKIFDRLA-KRDVVSWNSLLTAYAQHGFGK 345

Query: 304 EATKFLYLMKASGIQIQESLINDLRIACS 332
           EA  +   M+  GI+  E     +  ACS
Sbjct: 346 EAVWWFEEMRRVGIRPNEISFLSVLTACS 374

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYU9|PP378_ARATH Pentatricopeptide repeat-containing protein At5g13270, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H90 PE=2 SV=1

 Score =  140 bits (354), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 91/325 (28%), Positives = 157/325 (48%), Gaps = 9/325 (2%)

Query: 9   TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQL 68
            + MYT L+K     +      ++  H+  R  +         ++ M+V CG L  A+++
Sbjct: 183 PSSMYTTLLKSLVNPRALDFGRQIHAHV-IRAGLCSNTSIETGIVNMYVKCGWLVGAKRV 241

Query: 69  FDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV 128
           FD+M ++   +   ++VGY      ++ + LF +++        + + +++   VLKAC 
Sbjct: 242 FDQMAVKKPVACTGLMVGYTQAGRARDALKLFVDLVTEG-----VEWDSFVFSVVLKACA 296

Query: 129 CTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTA 188
               + LGKQ+H  + KLG    +S+   L++FY K    E A   F +++  N V W+A
Sbjct: 297 SLEELNLGKQIHACVAKLGLESEVSVGTPLVDFYIKCSSFESACRAFQEIREPNDVSWSA 356

Query: 189 KIVNNCREGHFHQVFNDFKEMGRERIK-KNSYTFSSVLKACGGVDDDGNCGRQMHANIVK 247
            I   C+   F +    FK +  +     NS+T++S+ +AC  V  D N G Q+HA+ +K
Sbjct: 357 IISGYCQMSQFEEAVKTFKSLRSKNASILNSFTYTSIFQAC-SVLADCNIGGQVHADAIK 415

Query: 248 IGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATK 307
             L   +Y +  L+ MY KC  L DA  VFE + D  +I +W A + G+   G   EA +
Sbjct: 416 RSLIGSQYGESALITMYSKCGCLDDANEVFESM-DNPDIVAWTAFISGHAYYGNASEALR 474

Query: 308 FLYLMKASGIQIQESLINDLRIACS 332
               M + G++        +  ACS
Sbjct: 475 LFEKMVSCGMKPNSVTFIAVLTACS 499

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H85 PE=3 SV=1

 Score =  138 bits (348), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 87/270 (32%), Positives = 136/270 (50%), Gaps = 7/270 (2%)

Query: 44  PTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEM 103
           P      RLL+ +  C  L+ AR++ DEMP ++  SW  MI  Y       E +T+FAEM
Sbjct: 85  PATYLRTRLLIFYGKCDCLEDARKVLDEMPEKNVVSWTAMISRYSQTGHSSEALTVFAEM 144

Query: 104 MKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG 163
           M+         F       VL +C+    + LGKQ+HGL+ K     +I +  SL++ Y 
Sbjct: 145 MRSDGKPNEFTF-----ATVLTSCIRASGLGLGKQIHGLIVKWNYDSHIFVGSSLLDMYA 199

Query: 164 KFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSS 223
           K   +++A  +F  L   + V  TA I    + G   +    F  +  E +  N  T++S
Sbjct: 200 KAGQIKEAREIFECLPERDVVSCTAIIAGYAQLGLDEEALEMFHRLHSEGMSPNYVTYAS 259

Query: 224 VLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK 283
           +L A  G+    + G+Q H ++++  L     +Q  L+DMY KC  L  A R+F+ + ++
Sbjct: 260 LLTALSGLALLDH-GKQAHCHVLRRELPFYAVLQNSLIDMYSKCGNLSYARRLFDNMPER 318

Query: 284 KNIASWNAMLVGYIRNGLYVEATKFLYLMK 313
             I SWNAMLVGY ++GL  E  +   LM+
Sbjct: 319 TAI-SWNAMLVGYSKHGLGREVLELFRLMR 347

Arabidopsis thaliana (taxid: 3702)

>sp|O64705|PP184_ARATH Pentatricopeptide repeat-containing protein At2g34400 OS=Arabidopsis thaliana GN=PCMP-E23 PE=3 SV=2

 Score =  138 bits (347), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 91/260 (35%), Positives = 139/260 (53%), Gaps = 15/260 (5%)

Query: 50  NRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKG 109
           + L++M+  CGQ+  AR+LFDE+  RD  SW  MI GY +    ++ + LF +M +    
Sbjct: 171 HSLIMMYAKCGQVGYARKLFDEITERDTVSWNSMISGYSEAGYAKDAMDLFRKMEEEG-- 228

Query: 110 HMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLT---GS-LINFYGKF 165
                     +V +L AC    ++  G+    LL ++  ++ I L+   GS LI+ YGK 
Sbjct: 229 ---FEPDERTLVSMLGACSHLGDLRTGR----LLEEMAITKKIGLSTFLGSKLISMYGKC 281

Query: 166 RCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVL 225
             L+ A  VF+Q+ + + V WTA I    + G   + F  F EM +  +  ++ T S+VL
Sbjct: 282 GDLDSARRVFNQMIKKDRVAWTAMITVYSQNGKSSEAFKLFFEMEKTGVSPDAGTLSTVL 341

Query: 226 KACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKN 285
            ACG V      G+Q+  +  ++ L+ + YV  GLVDMYGKC  + +A RVFE +   KN
Sbjct: 342 SACGSVGAL-ELGKQIETHASELSLQHNIYVATGLVDMYGKCGRVEEALRVFEAM-PVKN 399

Query: 286 IASWNAMLVGYIRNGLYVEA 305
            A+WNAM+  Y   G   EA
Sbjct: 400 EATWNAMITAYAHQGHAKEA 419

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX45|PPR75_ARATH Pentatricopeptide repeat-containing protein At1g50270 OS=Arabidopsis thaliana GN=PCMP-E42 PE=2 SV=1

 Score =  135 bits (340), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 95/315 (30%), Positives = 150/315 (47%), Gaps = 9/315 (2%)

Query: 19  ECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFN 78
           +  F+   +  F+   HI K   +       N L+  + S G  D A +LFD    +D  
Sbjct: 112 KAVFKLRDSNPFQFHAHIVK-FGLDSDPFVRNSLISGYSSSGLFDFASRLFDGAEDKDVV 170

Query: 79  SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQ 138
           +W  MI G+V      E +  F EM  +K G   +      +V VLKA     ++  G+ 
Sbjct: 171 TWTAMIDGFVRNGSASEAMVYFVEM--KKTG---VAANEMTVVSVLKAAGKVEDVRFGRS 225

Query: 139 VHGLLFKLGSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREG 197
           VHGL  + G  + ++ +  SL++ YGK  C +DA  VF ++   N V WTA I    +  
Sbjct: 226 VHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAGYVQSR 285

Query: 198 HFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQ 257
            F +    F+EM +  +  N  T SSVL AC  V    + GR++H  ++K  +E +    
Sbjct: 286 CFDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGA-LHRGRRVHCYMIKNSIEINTTAG 344

Query: 258 CGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGI 317
             L+D+Y KC  L +A  VFE +  +KN+ +W AM+ G+  +G   +A    Y M +S +
Sbjct: 345 TTLIDLYVKCGCLEEAILVFERL-HEKNVYTWTAMINGFAAHGYARDAFDLFYTMLSSHV 403

Query: 318 QIQESLINDLRIACS 332
              E     +  AC+
Sbjct: 404 SPNEVTFMAVLSACA 418

Arabidopsis thaliana (taxid: 3702)

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	340
388491128	356	unknown [Lotus japonicus]	0.988	0.943	0.561	1e-109
356495285	423	PREDICTED: pentatricopeptide repeat-cont	0.988	0.794	0.544	1e-107
359474747	414	PREDICTED: pentatricopeptide repeat-cont	0.979	0.804	0.563	1e-104
357484339	418	Pentatricopeptide repeat-containing prot	0.994	0.808	0.535	1e-103
255557831	403	pentatricopeptide repeat-containing prot	0.979	0.826	0.532	9e-97
15222460	409	pentatricopeptide repeat-containing prot	0.961	0.799	0.501	6e-93
297851610	410	pentatricopeptide repeat-containing prot	0.955	0.792	0.506	2e-92
147771530	543	hypothetical protein VITISV_016070 [Viti	0.879	0.550	0.504	2e-86
212721966	438	uncharacterized protein LOC100192712 [Ze	0.938	0.728	0.325	2e-44
115471361	435	Os07g0244400 [Oryza sativa Japonica Grou	0.958	0.749	0.323	3e-44

>gi|388491128|gb|AFK33630.1| unknown [Lotus japonicus]

 Score =  399 bits (1026), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 191/340 (56%), Positives = 243/340 (71%), Gaps = 4/340 (1%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD L  PI  D+YT LIKECT   D   A EL  HI     IKP L F+NR+L+M VSCG
Sbjct: 21  MDVLPFPIPIDIYTSLIKECTLSPDPQTAIELHTHI-AHSGIKPPLSFINRILVMFVSCG 79

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
            LD A QLFD MP++DFNSWA + + Y D ADY+E I +F  M+ +     +  FP WI 
Sbjct: 80  LLDYACQLFDAMPVKDFNSWATLFIAYYDNADYEEAIDVFLAMLHQLG---MSEFPPWIC 136

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR 180
            C LKAC C  N+ LG QVHG L KLG+  ++ L+ SLI FYG+F C++DA+ VF++L R
Sbjct: 137 ACFLKACACIENIPLGMQVHGWLLKLGTCDHVLLSSSLIRFYGRFTCVKDANAVFNKLSR 196

Query: 181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ 240
           HNT  WTAKIV+ CRE  F +VFNDFKEMGR+ IKK++YTFSSVLKACG + D G CG Q
Sbjct: 197 HNTSTWTAKIVSGCREMDFPEVFNDFKEMGRQGIKKDTYTFSSVLKACGKMMDHGRCGEQ 256

Query: 241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNG 300
           +HA+ +K+GL SD YVQC L+ MYG+  LLRDA++VFE    ++N+ SWNAML+GY+ NG
Sbjct: 257 VHADAMKLGLASDNYVQCSLIAMYGRSGLLRDAKQVFETSRSERNVDSWNAMLMGYLENG 316

Query: 301 LYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN 340
           LY+EA KFLY MKA+G++  ESL++ +RIAC S++ S  N
Sbjct: 317 LYIEAVKFLYQMKAAGLKPHESLLDKVRIACGSVTYSSTN 356

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495285|ref|XP_003516509.1| PREDICTED: pentatricopeptide repeat-containing protein At1g31790-like [Glycine max]

 Score =  395 bits (1015), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 185/340 (54%), Positives = 243/340 (71%), Gaps = 4/340 (1%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           M+ L  P+  D+YT LIKECT   D   A EL  HI K   IKP L FLNR+L+M VSCG
Sbjct: 88  MEALPFPVPIDIYTSLIKECTVSGDPETAIELATHISKS-GIKPPLPFLNRILVMFVSCG 146

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
            L+ AR +FD+M +RDFN+WA + V Y D  DY+E   +F  M+ +     ++ FP WI 
Sbjct: 147 LLENARHMFDKMRVRDFNTWATLFVAYYDNTDYEEATNVFVNMLTQLG---MMEFPPWIW 203

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR 180
            C+L+AC CT+N+ LG QVHG L KLG+  ++ L+ SLINFYG+F CLEDA  VF  + R
Sbjct: 204 ACLLRACACTVNVPLGMQVHGWLLKLGTCDHVLLSSSLINFYGRFTCLEDASVVFDGVSR 263

Query: 181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ 240
           HNT+ WTAKIV+ CRE HF +VF+DFKEMG   +KK+ +TFSSVLKACG + +   CG Q
Sbjct: 264 HNTLTWTAKIVSGCRERHFSEVFDDFKEMGMRGVKKDCFTFSSVLKACGRMLNQERCGEQ 323

Query: 241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNG 300
           +H + +K+GL SD YVQC L+ MYG+C LL DA+RVFE+  +++ +  WNAML+GYI+NG
Sbjct: 324 VHVDAIKLGLVSDHYVQCSLIAMYGRCGLLEDAKRVFEMSQEERKVDCWNAMLMGYIQNG 383

Query: 301 LYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN 340
           LY+EA KFLY M+A+G+Q +ESL+  LR+AC SIS S +N
Sbjct: 384 LYIEAVKFLYQMQAAGMQPRESLLKKLRMACGSISYSNMN 423

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359474747|ref|XP_003631528.1| PREDICTED: pentatricopeptide repeat-containing protein At1g31790-like [Vitis vinifera]

 Score =  385 bits (990), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 191/339 (56%), Positives = 243/339 (71%), Gaps = 6/339 (1%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD L LPI  D+Y  LIKE +   D+  A +LL HI  R  +  +   LNR+LLM+VSCG
Sbjct: 68  MDGLGLPIPPDIYASLIKESSTTGDATQATQLLAHI-NRSGLPLSSALLNRILLMYVSCG 126

Query: 61  QLDTARQLFDEMPLRDFNS--WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW 118
            + TAR +FD+M + + NS  WA+M+  Y+D   Y+E I LF +MM+     ++L  PAW
Sbjct: 127 LIHTARHMFDKMNVLNKNSISWAIMLAAYMDNGFYEEAIFLFVQMMELHST-IMLELPAW 185

Query: 119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL 178
           I +CVLKACV TMN+ LGKQVHG L K+G + N+ L+  LI+FYGKFRCL+DADFVF Q 
Sbjct: 186 IFICVLKACVHTMNLTLGKQVHGWLLKVGYATNLFLSCYLISFYGKFRCLDDADFVFDQT 245

Query: 179 KRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCG 238
              NTV+WTAK+VN C+  + H+    F EMGR  +K+N +T+SSVL+ACG + D G CG
Sbjct: 246 SERNTVIWTAKMVNKCQGEYMHEALVAFTEMGRAGVKRNEFTYSSVLRACGRMKDHGRCG 305

Query: 239 RQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGY 296
           R +HA+ +K+GLESD YVQCGLVDMYGKC LL +A RVFE + D  K NI  WNAML GY
Sbjct: 306 RLIHASTIKLGLESDIYVQCGLVDMYGKCGLLVEARRVFETVSDTNKTNIVCWNAMLTGY 365

Query: 297 IRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSIS 335
           IR+GLY+EA KFLY MKA+GIQ QESL+N+LRIAC S +
Sbjct: 366 IRHGLYIEAIKFLYQMKAAGIQPQESLLNELRIACGSTT 404

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357484339|ref|XP_003612457.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355513792|gb|AES95415.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  382 bits (981), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 182/340 (53%), Positives = 244/340 (71%), Gaps = 2/340 (0%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD L  PIT D+YT L+KECT   D   A EL   I  R  I+  L  LNR+L+M VSCG
Sbjct: 81  MDALHFPITIDIYTSLVKECTLSTDPETAIELHTQIITR-GIELPLTLLNRILIMFVSCG 139

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
            L+ AR++FD M +RDF+SWA + V Y +  +Y+  I +F  M+ +    M   FP WI 
Sbjct: 140 LLENARRVFDVMSVRDFHSWATLFVSYYENGEYENAIDVFVSMLCQLDV-MGFSFPPWIW 198

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR 180
            C+LKAC CTMN+ LG QVHG L KLG+  ++ ++ SLI FYG+F+CLEDA+ VF+++ R
Sbjct: 199 SCLLKACACTMNVPLGMQVHGCLLKLGACDHVLISSSLIRFYGRFKCLEDANMVFNRVSR 258

Query: 181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ 240
           HNT+ WTAKIV++CRE HF +   DFK+MGR  +KK+S+TFSSVLKACG + + G+CG Q
Sbjct: 259 HNTLTWTAKIVSSCRERHFSEALGDFKKMGRVGVKKDSFTFSSVLKACGRMQNRGSCGEQ 318

Query: 241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNG 300
           +HA+ +K+GL+SD YVQC L+ MYG+  LLRDAE VFE+  +++N+ S NAML+GYI+NG
Sbjct: 319 VHADAIKLGLDSDSYVQCSLIAMYGRSGLLRDAELVFEMTRNERNVDSLNAMLMGYIQNG 378

Query: 301 LYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKIN 340
           LY+EA KF+Y MKA+G+Q  E L+  LRIAC S + S +N
Sbjct: 379 LYIEAVKFVYQMKAAGVQPHEPLLEKLRIACGSSNFSSMN 418

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557831|ref|XP_002519945.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223540991|gb|EEF42549.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  359 bits (922), Expect = 9e-97,   Method: Compositional matrix adjust.
 Identities = 180/338 (53%), Positives = 245/338 (72%), Gaps = 5/338 (1%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD+LC PI  D+YT LIKECT   DS  A  L +H+  + N+K T   ++RLLLMHVSCG
Sbjct: 64  MDSLCHPIPPDIYTSLIKECTLTSDSTEALCLHSHLISQTNLKLTPPLVHRLLLMHVSCG 123

Query: 61  QLDTARQLFDEMPLR-DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP--A 117
           QLD AR LFD+MPL+ DF SW ++IVG    + Y+  I LF +M+ +   +  L+F    
Sbjct: 124 QLDIARNLFDKMPLKKDFISWVIVIVGCFSNSKYEAGINLFIDMLLQHSVYDGLMFDLNT 183

Query: 118 W--IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVF 175
           W  II+C++K C+ +MN+ LGKQVHG+LFK+G +  IS   SL++FYGK  CLED + VF
Sbjct: 184 WNIIILCIIKCCIYSMNISLGKQVHGILFKVGLTSEISFNVSLMDFYGKLGCLEDVNSVF 243

Query: 176 SQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDG 235
           ++L  HNT  WTAKIVN+CR   F++V  DFKEMG   IK+NS+T SSVL+AC  + D G
Sbjct: 244 NKLDNHNTATWTAKIVNSCRNQRFYEVIEDFKEMGEAGIKRNSFTVSSVLRACARMGDGG 303

Query: 236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVG 295
           NCG+Q+H  ++K+GLESD +VQCGL+ MYGKC ++R A++VFEL++DK N A WNA+L+ 
Sbjct: 304 NCGKQVHVIVIKLGLESDAFVQCGLIAMYGKCGMIRKAKKVFELVIDKTNTACWNALLMA 363

Query: 296 YIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSS 333
           Y+RN L++EA K LY M+A+ IQ+ ESL++ +RIAC +
Sbjct: 364 YVRNELFIEAMKLLYQMEAAKIQVNESLLDHVRIACGT 401

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222460|ref|NP_174459.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75169166|sp|Q9C6R9.1|PPR66_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g31790 gi|12321298|gb|AAG50719.1|AC079041_12 hypothetical protein [Arabidopsis thaliana] gi|111074348|gb|ABH04547.1| At1g31790 [Arabidopsis thaliana] gi|332193272|gb|AEE31393.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  347 bits (889), Expect = 6e-93,   Method: Compositional matrix adjust.
 Identities = 166/331 (50%), Positives = 227/331 (68%), Gaps = 4/331 (1%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD+L LP   D+Y+CL KE   + D  GA EL  HI K  +I+PT+ F+NRLLLMHVSCG
Sbjct: 79  MDSLSLPGNEDIYSCLAKESARENDQRGAHELQVHIMKS-SIRPTITFINRLLLMHVSCG 137

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
           +LD  RQ+FD MP RDF+SWA++ +G +++ DY++   LF  M+K  +     + P+WI+
Sbjct: 138 RLDITRQMFDRMPHRDFHSWAIVFLGCIEMGDYEDAAFLFVSMLKHSQKGAFKI-PSWIL 196

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLG--SSRNISLTGSLINFYGKFRCLEDADFVFSQL 178
            CVLKAC    + ELGKQVH L  KLG     +  L+GSLI FYG+FRCLEDA+ V  QL
Sbjct: 197 GCVLKACAMIRDFELGKQVHALCHKLGFIDEEDSYLSGSLIRFYGEFRCLEDANLVLHQL 256

Query: 179 KRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCG 238
              NTV W AK+ N+ REG F +V  DF EMG   IKKN   FS+VLKAC  V D G  G
Sbjct: 257 SNANTVAWAAKVTNDYREGEFQEVIRDFIEMGNHGIKKNVSVFSNVLKACSWVSDGGRSG 316

Query: 239 RQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIR 298
           +Q+HAN +K+G ESD  ++C L++MYGK   ++DAE+VF+   D+ +++ WNAM+  Y++
Sbjct: 317 QQVHANAIKLGFESDCLIRCRLIEMYGKYGKVKDAEKVFKSSKDETSVSCWNAMVASYMQ 376

Query: 299 NGLYVEATKFLYLMKASGIQIQESLINDLRI 329
           NG+Y+EA K LY MKA+GI+  ++L+N+  +
Sbjct: 377 NGIYIEAIKLLYQMKATGIKAHDTLLNEAHL 407

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297851610|ref|XP_002893686.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297339528|gb|EFH69945.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  345 bits (884), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 166/328 (50%), Positives = 224/328 (68%), Gaps = 3/328 (0%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD+L LP   D+Y+CL KE   + D  GA+EL  HI K    +PT  F+NRLLLMHVSCG
Sbjct: 79  MDSLSLPGNEDLYSCLAKESARENDRRGAYELQVHIMKSSIRRPTTTFVNRLLLMHVSCG 138

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
           +LD  R +FD+MP RDF+SWA++ +G +++ DY++   LF  M+K  +     + P+WI+
Sbjct: 139 RLDITRHMFDKMPHRDFHSWAIVFLGCIEMGDYEDAALLFVSMLKHSQNGAFKI-PSWIM 197

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLG--SSRNISLTGSLINFYGKFRCLEDADFVFSQL 178
            CVLKAC    + ELGKQVH L  KLG     +  L+GSLI FYG+FRCLEDA+ V  QL
Sbjct: 198 GCVLKACAMIRDFELGKQVHALCHKLGCIDEEDSYLSGSLIRFYGEFRCLEDANLVLHQL 257

Query: 179 KRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCG 238
              NTV W AK+ N+ REG F +V  DF EMG  RI+KN   FS+VLKAC  V D G  G
Sbjct: 258 SNANTVAWAAKVTNDYREGEFQEVIRDFIEMGNHRIRKNVSVFSNVLKACTWVSDGGRSG 317

Query: 239 RQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIR 298
           +Q+HA  +K+G ESD  ++C L++MYGK   ++DAE+VF+   D+ N+  WNAM+ GY++
Sbjct: 318 KQVHAVAIKLGFESDCLIRCRLIEMYGKYGKVKDAEKVFKSSKDETNVNCWNAMVAGYMQ 377

Query: 299 NGLYVEATKFLYLMKASGIQIQESLIND 326
           NG+YVEA K L  MKA+GI+ Q++L+N+
Sbjct: 378 NGIYVEAIKLLCQMKATGIKAQDTLLNE 405

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147771530|emb|CAN69066.1| hypothetical protein VITISV_016070 [Vitis vinifera]

 Score =  325 bits (833), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 171/339 (50%), Positives = 217/339 (64%), Gaps = 40/339 (11%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           MD L LPI  D+Y  LIKE +   D+  A +LL HI  R  +  +   LNR+LLM+VSCG
Sbjct: 231 MDGLGLPIPPDIYASLIKESSTTGDATQATQLLAHI-NRSGLPLSSALLNRILLMYVSCG 289

Query: 61  QLDTARQLFDEMPLRDFNS--WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW 118
            + TAR +FD+M + + NS  WA+M+  Y+D   Y+E I LF +MM+     ++L  PAW
Sbjct: 290 LIHTARHMFDKMNVLNKNSISWAIMLAAYMDNGFYEEAIFLFVQMMELHS-TIMLELPAW 348

Query: 119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL 178
           I +CVLKACV TMN+ LGKQVHG L                                   
Sbjct: 349 IFICVLKACVHTMNLTLGKQVHGWL----------------------------------T 374

Query: 179 KRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCG 238
           K  NTV+WTAK+VN C+  + H+    F EMGR  +K+N +T+SSVL+ACG + D G CG
Sbjct: 375 KERNTVIWTAKMVNKCQGEYMHEALVAFTEMGRAGVKRNEFTYSSVLRACGRMKDHGRCG 434

Query: 239 RQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGY 296
           R +HA+ +K+GLESD YVQCGLVDMYGKC LL +A RVFE + D  K NI  WNAML GY
Sbjct: 435 RLIHASTIKLGLESDIYVQCGLVDMYGKCGLLVEARRVFETVSDTNKTNIVCWNAMLTGY 494

Query: 297 IRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSIS 335
           IR+GLY+EA KFLY MKA+GIQ QESL+N+LRIAC S +
Sbjct: 495 IRHGLYIEAIKFLYQMKAAGIQPQESLLNELRIACGSTT 533

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|212721966|ref|NP_001131386.1| uncharacterized protein LOC100192712 [Zea mays] gi|194691388|gb|ACF79778.1| unknown [Zea mays] gi|414884126|tpg|DAA60140.1| TPA: hypothetical protein ZEAMMB73_895402 [Zea mays]

 Score =  186 bits (471), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 113/347 (32%), Positives = 181/347 (52%), Gaps = 28/347 (8%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHI--RKRVNIKPTLLFLNRLLLMHVS 58
           MD L +P   D+Y  L++EC    D+A    +  HI  R+  +  P+ +  NRLLL + +
Sbjct: 102 MDALGIPPDEDIYISLLRECA---DAAEVASVHAHITARRASDGLPSPV-ANRLLLSYAA 157

Query: 59  CGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP-- 116
           CG ++ AR++FD MP  +  +WA M+  Y D   + E + LFA M      H   V    
Sbjct: 158 CGDIEAARRVFDGMPTTNGMAWATMVSAYSDGCLHHEAMRLFAHMC-----HGTPVLDGD 212

Query: 117 --AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFY---GKFRCLEDA 171
             +  IV VL++C     + LG+QVH L+ K G      +  SL+  Y   G F     A
Sbjct: 213 CYSHAIVAVLRSCTRAGELRLGEQVHALVVKKGRIHG-DIGSSLVQLYCDGGGFH--RSA 269

Query: 172 DFVFSQLKRHN------TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVL 225
             V +   +H+         WT+ I +  RE    +  + F++M    + ++S++ SS+L
Sbjct: 270 RRVLATTMQHHCQEPVPEAAWTSLITSCHRESLLSEAVDVFRDMASSGVPRSSFSLSSIL 329

Query: 226 KACGGVDDDGNC-GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKK 284
                  D G C G+Q+HA+ +K G++++++V  GL+ MY K   L DA R FE I  K 
Sbjct: 330 AVFAESQDPGCCCGQQVHADAIKRGVDTNQFVGSGLIHMYAKQGQLADATRAFETIGGKP 389

Query: 285 NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIAC 331
           + A W+A+ + Y R G Y EAT+ +Y MKA+G+   + + + +R+AC
Sbjct: 390 DAACWSALAMAYARGGRYREATRIMYQMKAAGMNPSKEMADAVRLAC 436

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115471361|ref|NP_001059279.1| Os07g0244400 [Oryza sativa Japonica Group] gi|24417179|dbj|BAC22540.1| putative pentatricopeptide repeat-containing protein [Oryza sativa Japonica Group] gi|50508329|dbj|BAD30147.1| putative pentatricopeptide repeat-containing protein [Oryza sativa Japonica Group] gi|113610815|dbj|BAF21193.1| Os07g0244400 [Oryza sativa Japonica Group] gi|125599686|gb|EAZ39262.1| hypothetical protein OsJ_23686 [Oryza sativa Japonica Group]

 Score =  185 bits (469), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 109/337 (32%), Positives = 176/337 (52%), Gaps = 11/337 (3%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFL-NRLLLMHVSC 59
           +D L LP   D+Y  L+++C    D+A    +  HI  +  +    L L NRL+L + +C
Sbjct: 102 LDALRLPPDEDVYVSLLRDCA---DAAEVASVHAHIAGKFAVSGLPLPLANRLVLAYAAC 158

Query: 60  GQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI 119
           G +  ARQ+FDEMP+++  +WA M+  Y D   + + + LF +M  + +G     +    
Sbjct: 159 GDIGAARQVFDEMPVKNGITWATMVSAYSDGCFHHDALQLFVQMCHQVRGITGDHY-THA 217

Query: 120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFV----- 174
           IV VL++C     ++ G+QVH  + K        +  SL+  Y     L  A  V     
Sbjct: 218 IVAVLRSCARVNELQFGEQVHAFVVKKNGVCG-DVGSSLLQLYCDSGQLSSARHVLEMMR 276

Query: 175 FSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDD 234
           FS  +      WT+ I    R+G      + F+ M    I ++S++ SS+L  C    + 
Sbjct: 277 FSCQEPVPEAAWTSLITAYHRDGILDDAIDVFRGMASSGIARSSFSLSSILAVCAEAKNK 336

Query: 235 GNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLV 294
           G  G+Q+HA+ +K GL+ +++V  GL+ MY K   L DA R FE I  K +   WNAM +
Sbjct: 337 GCYGQQVHADAIKRGLDMNQFVGSGLLHMYAKEGQLADAARAFEAIDGKPDAVCWNAMAM 396

Query: 295 GYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIAC 331
            Y R G+Y EAT+ +Y MKA+G+   +  +N++++AC
Sbjct: 397 AYARGGMYREATRVVYQMKAAGMNPSKLTMNEVKLAC 433

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	340
TAIR|locus:2034491	409	AT1G31790 "AT1G31790" [Arabido	0.958	0.797	0.506	5.9e-89
TAIR|locus:2124603	617	AT4G18520 [Arabidopsis thalian	0.935	0.515	0.303	3.1e-37
TAIR|locus:2083961	768	AT3G53360 "AT3G53360" [Arabido	0.9	0.398	0.307	6e-33
TAIR|locus:2183886	752	RARE1 "REQUIRED FOR ACCD RNA E	0.926	0.418	0.283	9.3e-33
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.811	0.324	0.302	3.4e-32
TAIR|locus:2098901	783	AT3G61170 [Arabidopsis thalian	0.823	0.357	0.293	9.8e-32
TAIR|locus:2115130	691	AT4G37170 "AT4G37170" [Arabido	0.797	0.392	0.292	1.4e-31
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.905	0.516	0.305	1.7e-31
TAIR|locus:2091546	628	AT3G13770 [Arabidopsis thalian	0.861	0.466	0.312	3.5e-31
TAIR|locus:2063771	689	AT2G03380 [Arabidopsis thalian	0.823	0.406	0.305	2.2e-30

TAIR|locus:2034491 AT1G31790 "AT1G31790" [Arabidopsis thaliana (taxid:3702)]

 Score = 888 (317.7 bits), Expect = 5.9e-89, P = 5.9e-89
 Identities = 168/332 (50%), Positives = 229/332 (68%)

Query:     1 MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
             MD+L LP   D+Y+CL KE   + D  GA EL  HI K  +I+PT+ F+NRLLLMHVSCG
Sbjct:    79 MDSLSLPGNEDIYSCLAKESARENDQRGAHELQVHIMKS-SIRPTITFINRLLLMHVSCG 137

Query:    61 QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKR-KKGHMLLVFPAWI 119
             +LD  RQ+FD MP RDF+SWA++ +G +++ DY++   LF  M+K  +KG   +  P+WI
Sbjct:   138 RLDITRQMFDRMPHRDFHSWAIVFLGCIEMGDYEDAAFLFVSMLKHSQKGAFKI--PSWI 195

Query:   120 IVCVLKACVCTMNMELGKQVHGLLFKLG--SSRNISLTGSLINFYGKFRCLEDADFVFSQ 177
             + CVLKAC    + ELGKQVH L  KLG     +  L+GSLI FYG+FRCLEDA+ V  Q
Sbjct:   196 LGCVLKACAMIRDFELGKQVHALCHKLGFIDEEDSYLSGSLIRFYGEFRCLEDANLVLHQ 255

Query:   178 LKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNC 237
             L   NTV W AK+ N+ REG F +V  DF EMG   IKKN   FS+VLKAC  V D G  
Sbjct:   256 LSNANTVAWAAKVTNDYREGEFQEVIRDFIEMGNHGIKKNVSVFSNVLKACSWVSDGGRS 315

Query:   238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYI 297
             G+Q+HAN +K+G ESD  ++C L++MYGK   ++DAE+VF+   D+ +++ WNAM+  Y+
Sbjct:   316 GQQVHANAIKLGFESDCLIRCRLIEMYGKYGKVKDAEKVFKSSKDETSVSCWNAMVASYM 375

Query:   298 RNGLYVEATKFLYLMKASGIQIQESLINDLRI 329
             +NG+Y+EA K LY MKA+GI+  ++L+N+  +
Sbjct:   376 QNGIYIEAIKLLYQMKATGIKAHDTLLNEAHL 407

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2124603 AT4G18520 [Arabidopsis thaliana (taxid:3702)]

 Score = 403 (146.9 bits), Expect = 3.1e-37, P = 3.1e-37
 Identities = 100/329 (30%), Positives = 171/329 (51%)

Query:     8 ITTDMYTC-LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTAR 66
             +  +   C ++K C+ +K      ++ + + KR+ IK  +     L+ M+  CG++   R
Sbjct:   281 LPNEFTVCSILKACSEEKALRFGRQVHSLVVKRM-IKTDVFVGTSLMDMYAKCGEISDCR 339

Query:    67 QLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA 126
             ++FD M  R+  +W  +I  +      +E I+LF  +MKR+  H  L+     +V +L+A
Sbjct:   340 KVFDGMSNRNTVTWTSIIAAHAREGFGEEAISLF-RIMKRR--H--LIANNLTVVSILRA 394

Query:   127 CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVW 186
             C     + LGK++H  + K    +N+ +  +L+  Y K     DA  V  QL   + V W
Sbjct:   395 CGSVGALLLGKELHAQIIKNSIEKNVYIGSTLVWLYCKCGESRDAFNVLQQLPSRDVVSW 454

Query:   187 TAKIVNNCRE-GHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI 245
             TA +++ C   GH  +  +  KEM +E ++ N +T+SS LKAC    +    GR +H+  
Sbjct:   455 TA-MISGCSSLGHESEALDFLKEMIQEGVEPNPFTYSSALKACAN-SESLLIGRSIHSIA 512

Query:   246 VKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEA 305
              K    S+ +V   L+ MY KC  + +A RVF+ + +K N+ SW AM++GY RNG   EA
Sbjct:   513 KKNHALSNVFVGSALIHMYAKCGFVSEAFRVFDSMPEK-NLVSWKAMIMGYARNGFCREA 571

Query:   306 TKFLYLMKASGIQIQESLINDLRIACSSI 334
              K +Y M+A G ++ + +   +   C  I
Sbjct:   572 LKLMYRMEAEGFEVDDYIFATILSTCGDI 600

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083961 AT3G53360 "AT3G53360" [Arabidopsis thaliana (taxid:3702)]

 Score = 368 (134.6 bits), Expect = 6.0e-33, P = 6.0e-33
 Identities = 97/315 (30%), Positives = 150/315 (47%)

Query:     3 NLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQL 62
             N    I    Y  LI  C+  +  A   ++ +HI    N K   +  N +L M+  CG L
Sbjct:    60 NSSFKIRLRTYISLICACSSSRSLAQGRKIHDHILNS-NCKYDTILNNHILSMYGKCGSL 118

Query:    63 DTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC 122
               AR++FD MP R+  S+  +I GY       E I L+ +M++       LV   +    
Sbjct:   119 RDAREVFDFMPERNLVSYTSVITGYSQNGQGAEAIRLYLKMLQED-----LVPDQFAFGS 173

Query:   123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN 182
             ++KAC  + ++ LGKQ+H  + KL SS ++    +LI  Y +F  + DA  VF  +   +
Sbjct:   174 IIKACASSSDVGLGKQLHAQVIKLESSSHLIAQNALIAMYVRFNQMSDASRVFYGIPMKD 233

Query:   183 TVVWTAKIVNNCREGHFHQVFNDFKEMGRERI-KKNSYTFSSVLKACGGVDDDGNCGRQM 241
              + W++ I    + G   +  +  KEM    +   N Y F S LKAC  +    + G Q+
Sbjct:   234 LISWSSIIAGFSQLGFEFEALSHLKEMLSFGVFHPNEYIFGSSLKACSSLLRP-DYGSQI 292

Query:   242 HANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGL 301
             H   +K  L  +    C L DMY +C  L  A RVF+ I ++ + ASWN ++ G   NG 
Sbjct:   293 HGLCIKSELAGNAIAGCSLCDMYARCGFLNSARRVFDQI-ERPDTASWNVIIAGLANNGY 351

Query:   302 YVEATKFLYLMKASG 316
               EA      M++SG
Sbjct:   352 ADEAVSVFSQMRSSG 366

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2183886 RARE1 "REQUIRED FOR ACCD RNA EDITING 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 366 (133.9 bits), Expect = 9.3e-33, P = 9.3e-33
 Identities = 92/324 (28%), Positives = 159/324 (49%)

Query:    10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLF 69
             + MYT L+K     +      ++  H+  R  +         ++ M+V CG L  A+++F
Sbjct:   184 SSMYTTLLKSLVNPRALDFGRQIHAHVI-RAGLCSNTSIETGIVNMYVKCGWLVGAKRVF 242

Query:    70 DEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC 129
             D+M ++   +   ++VGY      ++ + LF +++   +G   + + +++   VLKAC  
Sbjct:   243 DQMAVKKPVACTGLMVGYTQAGRARDALKLFVDLVT--EG---VEWDSFVFSVVLKACAS 297

Query:   130 TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAK 189
                + LGKQ+H  + KLG    +S+   L++FY K    E A   F +++  N V W+A 
Sbjct:   298 LEELNLGKQIHACVAKLGLESEVSVGTPLVDFYIKCSSFESACRAFQEIREPNDVSWSAI 357

Query:   190 IVNNCREGHFHQVFNDFKEMGRERIK-KNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI 248
             I   C+   F +    FK +  +     NS+T++S+ +AC  V  D N G Q+HA+ +K 
Sbjct:   358 ISGYCQMSQFEEAVKTFKSLRSKNASILNSFTYTSIFQACS-VLADCNIGGQVHADAIKR 416

Query:   249 GLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKF 308
              L   +Y +  L+ MY KC  L DA  VFE + D  +I +W A + G+   G   EA + 
Sbjct:   417 SLIGSQYGESALITMYSKCGCLDDANEVFESM-DNPDIVAWTAFISGHAYYGNASEALRL 475

Query:   309 LYLMKASGIQIQESLINDLRIACS 332
                M + G++        +  ACS
Sbjct:   476 FEKMVSCGMKPNSVTFIAVLTACS 499

GO:0009507 "chloroplast" evidence=ISM

GO:0009451 "RNA modification" evidence=IMP

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 345 (126.5 bits), Expect = 3.4e-32, Sum P(2) = 3.4e-32
 Identities = 87/288 (30%), Positives = 140/288 (48%)

Query:    52 LLLMHVSC---GQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQ-ECITLFAEMMKRK 107
             L+ M+  C   G +D  R++FD M      SW  +I GY+   +   E I LF+EM+ + 
Sbjct:   308 LVDMYAKCSADGSVDDCRKVFDRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQ- 366

Query:   108 KGHMLLVFPA-WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR 166
              GH   V P  +      KAC    +  +GKQV G  FK G + N S+  S+I+ + K  
Sbjct:   367 -GH---VEPNHFTFSSAFKACGNLSDPRVGKQVLGQAFKRGLASNSSVANSVISMFVKSD 422

Query:   167 CLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLK 226
              +EDA   F  L   N V +   +   CR  +F Q F    E+    +  +++TF+S+L 
Sbjct:   423 RMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQAFKLLSEITERELGVSAFTFASLLS 482

Query:   227 ACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNI 286
                 V      G Q+H+ +VK+GL  ++ V   L+ MY KC  +  A RVF  + + +N+
Sbjct:   483 GVANVGSIRK-GEQIHSQVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFM-ENRNV 540

Query:   287 ASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSI 334
              SW +M+ G+ ++G  +   +    M   G++  E     +  ACS +
Sbjct:   541 ISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACSHV 588

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2098901 AT3G61170 [Arabidopsis thaliana (taxid:3702)]

 Score = 357 (130.7 bits), Expect = 9.8e-32, P = 9.8e-32
 Identities = 86/293 (29%), Positives = 151/293 (51%)

Query:    50 NRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKG 109
             N +++ + +  +L  A +LF   P+++  SW  +I GY       E   LF EM  +  G
Sbjct:    63 NTMIVAYSNSRRLSDAEKLFRSNPVKNTISWNALISGYCKSGSKVEAFNLFWEM--QSDG 120

Query:   110 HMLLVFP-AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL 168
                 + P  + +  VL+ C   + +  G+Q+HG   K G   ++++   L+  Y + + +
Sbjct:   121 ----IKPNEYTLGSVLRMCTSLVLLLRGEQIHGHTIKTGFDLDVNVVNGLLAMYAQCKRI 176

Query:   169 EDADFVFSQLK-RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKA 227
              +A+++F  ++   N V WT+ +    + G   +    F+++ RE  + N YTF SVL A
Sbjct:   177 SEAEYLFETMEGEKNNVTWTSMLTGYSQNGFAFKAIECFRDLRREGNQSNQYTFPSVLTA 236

Query:   228 CGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFE-LIVDKKNI 286
             C  V      G Q+H  IVK G +++ YVQ  L+DMY KCR +  A  + E + VD  ++
Sbjct:   237 CASVSAC-RVGVQVHCCIVKSGFKTNIYVQSALIDMYAKCREMESARALLEGMEVD--DV 293

Query:   287 ASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKI 339
              SWN+M+VG +R GL  EA      M    ++I +  I  + + C ++S +++
Sbjct:   294 VSWNSMIVGCVRQGLIGEALSMFGRMHERDMKIDDFTIPSI-LNCFALSRTEM 345

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2115130 AT4G37170 "AT4G37170" [Arabidopsis thaliana (taxid:3702)]

 Score = 354 (129.7 bits), Expect = 1.4e-31, P = 1.4e-31
 Identities = 81/277 (29%), Positives = 140/277 (50%)

Query:    56 HVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVF 115
             +   G L+ AR+LFDEM  +D  SW  M+ GYV     +E + L++ +M+R       +F
Sbjct:   161 YAEVGLLEEARKLFDEMTEKDSYSWTAMVTGYVKKDQPEEALVLYS-LMQRVPNSRPNIF 219

Query:   116 PAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVF 175
                I V    A  C   +  GK++HG + + G   +  L  SL++ YGK  C+++A  +F
Sbjct:   220 TVSIAVAAAAAVKC---IRRGKEIHGHIVRAGLDSDEVLWSSLMDMYGKCGCIDEARNIF 276

Query:   176 SQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDG 235
              ++   + V WT+ I    +   + + F+ F E+     + N YTF+ VL AC  +  + 
Sbjct:   277 DKIVEKDVVSWTSMIDRYFKSSRWREGFSLFSELVGSCERPNEYTFAGVLNACADLTTE- 335

Query:   236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVG 295
               G+Q+H  + ++G +   +    LVDMY KC  +  A+ V +    K ++ SW +++ G
Sbjct:   336 ELGKQVHGYMTRVGFDPYSFASSSLVDMYTKCGNIESAKHVVDGC-PKPDLVSWTSLIGG 394

Query:   296 YIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACS 332
               +NG   EA K+  L+  SG +       ++  AC+
Sbjct:   395 CAQNGQPDEALKYFDLLLKSGTKPDHVTFVNVLSACT 431

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2011892 AT1G50270 "AT1G50270" [Arabidopsis thaliana (taxid:3702)]

 Score = 351 (128.6 bits), Expect = 1.7e-31, P = 1.7e-31
 Identities = 97/318 (30%), Positives = 151/318 (47%)

Query:    16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR 75
             L+K   F+   +  F+   HI K   +       N L+  + S G  D A +LFD    +
Sbjct:   110 LLK-AVFKLRDSNPFQFHAHIVK-FGLDSDPFVRNSLISGYSSSGLFDFASRLFDGAEDK 167

Query:    76 DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMEL 135
             D  +W  MI G+V      E +  F EM  +K G   +      +V VLKA     ++  
Sbjct:   168 DVVTWTAMIDGFVRNGSASEAMVYFVEM--KKTG---VAANEMTVVSVLKAAGKVEDVRF 222

Query:   136 GKQVHGLLFKLGSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNC 194
             G+ VHGL  + G  + ++ +  SL++ YGK  C +DA  VF ++   N V WTA I    
Sbjct:   223 GRSVHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAGYV 282

Query:   195 REGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDE 254
             +   F +    F+EM +  +  N  T SSVL AC  V      GR++H  ++K  +E + 
Sbjct:   283 QSRCFDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGALHR-GRRVHCYMIKNSIEINT 341

Query:   255 YVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKA 314
                  L+D+Y KC  L +A  VFE +  +KN+ +W AM+ G+  +G   +A    Y M +
Sbjct:   342 TAGTTLIDLYVKCGCLEEAILVFERL-HEKNVYTWTAMINGFAAHGYARDAFDLFYTMLS 400

Query:   315 SGIQIQESLINDLRIACS 332
             S +   E     +  AC+
Sbjct:   401 SHVSPNEVTFMAVLSACA 418

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2091546 AT3G13770 [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 3.5e-31, P = 3.5e-31
 Identities = 94/301 (31%), Positives = 149/301 (49%)

Query:    13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEM 72
             Y  L+  C  ++       +  H+ K   +  T L   RLL+ +  C  L+ AR++ DEM
Sbjct:    55 YDALLNACLDKRALRDGQRVHAHMIKTRYLPATYL-RTRLLIFYGKCDCLEDARKVLDEM 113

Query:    73 PLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN 132
             P ++  SW  MI  Y       E +T+FAEMM R  G        +    VL +C+    
Sbjct:   114 PEKNVVSWTAMISRYSQTGHSSEALTVFAEMM-RSDGKP----NEFTFATVLTSCIRASG 168

Query:   133 MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVN 192
             + LGKQ+HGL+ K     +I +  SL++ Y K   +++A  +F  L   + V  TA I  
Sbjct:   169 LGLGKQIHGLIVKWNYDSHIFVGSSLLDMYAKAGQIKEAREIFECLPERDVVSCTAIIAG 228

Query:   193 NCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES 252
               + G   +    F  +  E +  N  T++S+L A  G+    + G+Q H ++++  L  
Sbjct:   229 YAQLGLDEEALEMFHRLHSEGMSPNYVTYASLLTALSGLALLDH-GKQAHCHVLRRELPF 287

Query:   253 DEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLM 312
                +Q  L+DMY KC  L  A R+F+ + ++  I SWNAMLVGY ++GL  E  +   LM
Sbjct:   288 YAVLQNSLIDMYSKCGNLSYARRLFDNMPERTAI-SWNAMLVGYSKHGLGREVLELFRLM 346

Query:   313 K 313
             +
Sbjct:   347 R 347

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2063771 AT2G03380 [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 2.2e-30, P = 2.2e-30
 Identities = 88/288 (30%), Positives = 146/288 (50%)

Query:    49 LNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKK 108
             L  LL M+  CG++ +A ++F+++ LR+   W  MI GYV     +E + LF  M +   
Sbjct:   179 LTGLLDMYAKCGEIKSAHKVFNDITLRNVVCWTSMIAGYVKNDLCEEGLVLFNRMRENN- 237

Query:   109 GHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL 168
                 ++   +    ++ AC     +  GK  HG L K G   +  L  SL++ Y K   +
Sbjct:   238 ----VLGNEYTYGTLIMACTKLSALHQGKWFHGCLVKSGIELSSCLVTSLLDMYVKCGDI 293

Query:   169 EDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC 228
              +A  VF++    + V+WTA IV     G  ++  + F++M    IK N  T +SVL  C
Sbjct:   294 SNARRVFNEHSHVDLVMWTAMIVGYTHNGSVNEALSLFQKMKGVEIKPNCVTIASVLSGC 353

Query:   229 GGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIAS 288
             G +++    GR +H   +K+G+  D  V   LV MY KC   RDA+ VFE+   +K+I +
Sbjct:   354 GLIENL-ELGRSVHGLSIKVGIW-DTNVANALVHMYAKCYQNRDAKYVFEM-ESEKDIVA 410

Query:   289 WNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISA 336
             WN+++ G+ +NG   EA    + M +  +      +  L  AC+S+ +
Sbjct:   411 WNSIISGFSQNGSIHEALFLFHRMNSESVTPNGVTVASLFSACASLGS 458

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9C6R9	PPR66_ARATH	No assigned EC number	0.5015	0.9617	0.7995	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	340
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-45
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-36
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-36
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-33
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-20
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-20
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-18
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.003

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  163 bits (414), Expect = 3e-45
 Identities = 93/312 (29%), Positives = 149/312 (47%), Gaps = 10/312 (3%)

Query: 6   LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTA 65
           LP +T  Y  L++ C   K       +  H+      +P    +NR+LLMHV CG L  A
Sbjct: 121 LPAST--YDALVEACIALKSIRCVKAVYWHVESS-GFEPDQYMMNRVLLMHVKCGMLIDA 177

Query: 66  RQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK 125
           R+LFDEMP R+  SW  +I G VD  +Y+E   LF EM +               V +L+
Sbjct: 178 RRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWED-----GSDAEPRTFVVMLR 232

Query: 126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVV 185
           A     +   G+Q+H  + K G   +  ++ +LI+ Y K   +EDA  VF  +    TV 
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA 292

Query: 186 WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI 245
           W + +      G+  +    + EM    +  + +TFS +++    +    +  +Q HA +
Sbjct: 293 WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEH-AKQAHAGL 351

Query: 246 VKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEA 305
           ++ G   D      LVD+Y K   + DA  VF+ +  +KN+ SWNA++ GY  +G   +A
Sbjct: 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM-PRKNLISWNALIAGYGNHGRGTKA 410

Query: 306 TKFLYLMKASGI 317
            +    M A G+
Sbjct: 411 VEMFERMIAEGV 422

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  139 bits (352), Expect = 1e-36
 Identities = 101/332 (30%), Positives = 163/332 (49%), Gaps = 13/332 (3%)

Query: 8   ITTDMYT--CLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTA 65
           +  D+YT  C+++ C    D A   E+  H+  R   +  +  +N L+ M+V CG + +A
Sbjct: 183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHV-VRFGFELDVDVVNALITMYVKCGDVVSA 241

Query: 66  RQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI-IVCVL 124
           R +FD MP RD  SW  MI GY +  +  E + LF  M +      L V P  + I  V+
Sbjct: 242 RLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRE------LSVDPDLMTITSVI 295

Query: 125 KACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTV 184
            AC    +  LG+++HG + K G + ++S+  SLI  Y       +A+ VFS+++  + V
Sbjct: 296 SACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAV 355

Query: 185 VWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHAN 244
            WTA I    + G   +    +  M ++ +  +  T +SVL AC  + D  + G ++H  
Sbjct: 356 SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL-DVGVKLHEL 414

Query: 245 IVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVE 304
             + GL S   V   L++MY KC+ +  A  VF  I + K++ SW +++ G   N    E
Sbjct: 415 AERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE-KDVISWTSIIAGLRLNNRCFE 473

Query: 305 ATKFLYLMKASGIQIQESLINDLRIACSSISA 336
           A  F   M  +      +LI  L  AC+ I A
Sbjct: 474 ALIFFRQMLLTLKPNSVTLIAALS-ACARIGA 504

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  137 bits (346), Expect = 8e-36
 Identities = 80/288 (27%), Positives = 135/288 (46%), Gaps = 15/288 (5%)

Query: 48  FLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRK 107
             N L+ M++S G    A ++F  M  +D  SW  MI GY       + +  +A M +  
Sbjct: 325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDN 384

Query: 108 KGHMLLVFPAWI-IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR 166
                 V P  I I  VL AC C  ++++G ++H L  + G    + +  +LI  Y K +
Sbjct: 385 ------VSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCK 438

Query: 167 CLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLK 226
           C++ A  VF  +   + + WT+ I          +    F++M    +K NS T  + L 
Sbjct: 439 CIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALS 497

Query: 227 ACGGVDDDG--NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKK 284
           AC  +   G   CG+++HA++++ G+  D ++   L+D+Y +C  +  A   F     +K
Sbjct: 498 ACARI---GALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN--SHEK 552

Query: 285 NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACS 332
           ++ SWN +L GY+ +G    A +    M  SG+   E     L  ACS
Sbjct: 553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  131 bits (330), Expect = 1e-33
 Identities = 90/334 (26%), Positives = 150/334 (44%), Gaps = 8/334 (2%)

Query: 1   MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG 60
           M  L +P+  D Y  L + C +++       + +           +   N +L M V  G
Sbjct: 77  MQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHP-SLGVRLGNAMLSMFVRFG 135

Query: 61  QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII 120
           +L  A  +F +MP RD  SW V++ GY     + E + L+  M+       +  FP    
Sbjct: 136 ELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP---- 191

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR 180
            CVL+ C    ++  G++VH  + + G   ++ +  +LI  Y K   +  A  VF ++ R
Sbjct: 192 -CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR 250

Query: 181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ 240
            + + W A I      G   +    F  M    +  +  T +SV+ AC  + D+   GR+
Sbjct: 251 RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER-LGRE 309

Query: 241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNG 300
           MH  +VK G   D  V   L+ MY       +AE+VF  + + K+  SW AM+ GY +NG
Sbjct: 310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM-ETKDAVSWTAMISGYEKNG 368

Query: 301 LYVEATKFLYLMKASGIQIQESLINDLRIACSSI 334
           L  +A +   LM+   +   E  I  +  AC+ +
Sbjct: 369 LPDKALETYALMEQDNVSPDEITIASVLSACACL 402

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 92.6 bits (230), Expect = 1e-20
 Identities = 51/154 (33%), Positives = 79/154 (51%), Gaps = 2/154 (1%)

Query: 168 LEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKA 227
           L DA  +F ++   N   W   I      G++ + F  F+EM  +       TF  +L+A
Sbjct: 174 LIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRA 233

Query: 228 CGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIA 287
             G+      G+Q+H  ++K G+  D +V C L+DMY KC  + DA  VF+ + +K  +A
Sbjct: 234 SAGLGS-ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA 292

Query: 288 SWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE 321
            WN+ML GY  +G   EA    Y M+ SG+ I +
Sbjct: 293 -WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQ 325

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 91.1 bits (226), Expect = 4e-20
 Identities = 59/219 (26%), Positives = 104/219 (47%), Gaps = 8/219 (3%)

Query: 121 VCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR 180
           V + + C     +E G +V         S  + L  ++++ + +F  L  A +VF ++  
Sbjct: 90  VALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPE 149

Query: 181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ 240
            +   W   +    + G+F +    +  M    ++ + YTF  VL+ CGG+ D    GR+
Sbjct: 150 RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLAR-GRE 208

Query: 241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNG 300
           +HA++V+ G E D  V   L+ MY KC  +  A  VF+ +  +++  SWNAM+ GY  NG
Sbjct: 209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP-RRDCISWNAMISGYFENG 267

Query: 301 LYVEATKFLYLMKASGIQIQESLINDLRIACSSISASKI 339
             +E  +  + M+   +        DL    S ISA ++
Sbjct: 268 ECLEGLELFFTMRELSVD------PDLMTITSVISACEL 300

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 86.5 bits (214), Expect = 1e-18
 Identities = 82/323 (25%), Positives = 139/323 (43%), Gaps = 51/323 (15%)

Query: 52  LLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHM 111
           L+ M+  CG ++ AR +FD MP +   +W  M+ GY      +E + L+ EM  R  G  
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEM--RDSGVS 322

Query: 112 LLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA 171
           +  F   I+   ++       +E  KQ H  L + G   +I    +L++ Y K+  +EDA
Sbjct: 323 IDQFTFSIM---IRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDA 379

Query: 172 DFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC--G 229
             VF ++ R N + W A I      G   +    F+ M  E +  N  TF +VL AC   
Sbjct: 380 RNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYS 439

Query: 230 GVDDDG---------NCG---RQMH-ANIVKI----GLESDEYVQC------GLVDMYG- 265
           G+ + G         N     R MH A ++++    GL  + Y           V+M+  
Sbjct: 440 GLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAA 499

Query: 266 ---KCRLLRD-------AERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS 315
               CR+ ++       AE+++ +  +K  + ++  +L  Y  +G   EA K +  +K  
Sbjct: 500 LLTACRIHKNLELGRLAAEKLYGMGPEK--LNNYVVLLNLYNSSGRQAEAAKVVETLKRK 557

Query: 316 GIQIQESLINDLRIACSSISASK 338
           G+ +          AC+ I   K
Sbjct: 558 GLSMHP--------ACTWIEVKK 572

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 55.2 bits (133), Expect = 2e-08
 Identities = 57/261 (21%), Positives = 101/261 (38%), Gaps = 37/261 (14%)

Query: 50  NRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKG 109
           N L+ M+  C  +D A ++F  +P +D  SW  +I G        E +  F +M+   K 
Sbjct: 428 NALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKP 487

Query: 110 HMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE 169
           +      +  ++  L AC     +  GK++H  + + G   +  L  +L++ Y   RC  
Sbjct: 488 N------SVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLY--VRCGR 539

Query: 170 DADFVFSQLKRH--NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKA 227
             ++ ++Q   H  + V W   +      G        F  M    +  +  TF S+L A
Sbjct: 540 -MNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCA 598

Query: 228 CGGVDDDGNCGRQMHANIVKIGLE-----SDEY--------VQCGLVDMYGKCRLLRDAE 274
           C              + +V  GLE      ++Y          C +VD+ G+   L +A 
Sbjct: 599 CS------------RSGMVTQGLEYFHSMEEKYSITPNLKHYAC-VVDLLGRAGKLTEAY 645

Query: 275 RVFELIVDKKNIASWNAMLVG 295
                +    + A W A+L  
Sbjct: 646 NFINKMPITPDPAVWGALLNA 666

Length = 857

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.8 bits (89), Expect = 2e-04
 Identities = 13/47 (27%), Positives = 22/47 (46%)

Query: 182 NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC 228
           + V +   I   C++G   +    F EM +  IK N YT+S ++   
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 34.4 bits (80), Expect = 0.003
 Identities = 9/30 (30%), Positives = 17/30 (56%)

Query: 288 SWNAMLVGYIRNGLYVEATKFLYLMKASGI 317
           ++N+++ GY + G   EA +    MK  G+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	340
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.91
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.72
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.72
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.72
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.71
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.68
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.66
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.64
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.64
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.62
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.62
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.61
PF13041	50	PPR_2: PPR repeat family	99.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.6
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.58
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.58
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.57
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.53
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.52
PF13041	50	PPR_2: PPR repeat family	99.51
PRK14574	822	hmsH outer membrane protein; Provisional	99.5
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.5
KOG2003	840	consensus TPR repeat-containing protein [General f	99.49
KOG1126	638	consensus DNA-binding cell division cycle control	99.49
PRK14574	822	hmsH outer membrane protein; Provisional	99.48
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.48
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.46
KOG2076	895	consensus RNA polymerase III transcription factor	99.46
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.41
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.41
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.4
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.37
KOG1126	638	consensus DNA-binding cell division cycle control	99.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
PRK12370	553	invasion protein regulator; Provisional	99.3
PRK12370	553	invasion protein regulator; Provisional	99.28
KOG2076	895	consensus RNA polymerase III transcription factor	99.26
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.24
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.24
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.19
KOG2003	840	consensus TPR repeat-containing protein [General f	99.19
KOG1129	478	consensus TPR repeat-containing protein [General f	99.15
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.13
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.13
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.12
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.11
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.09
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.08
KOG1129	478	consensus TPR repeat-containing protein [General f	99.07
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.05
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.04
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.04
PRK11189	296	lipoprotein NlpI; Provisional	99.04
PF12854	34	PPR_1: PPR repeat	99.02
PF12854	34	PPR_1: PPR repeat	99.02
PRK11189	296	lipoprotein NlpI; Provisional	99.01
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.01
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.95
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.92
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.83
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.83
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.8
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.77
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.77
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.74
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.7
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.69
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.69
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.67
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.66
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.63
PRK04841	903	transcriptional regulator MalT; Provisional	98.63
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.62
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.61
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.6
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.58
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.58
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.57
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.55
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.53
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.52
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.51
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.51
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.51
KOG1125	579	consensus TPR repeat-containing protein [General f	98.5
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.47
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.46
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.44
PRK15359	144	type III secretion system chaperone protein SscB;	98.43
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.43
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.42
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.41
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.4
PLN02789	320	farnesyltranstransferase	98.4
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.39
PRK15359	144	type III secretion system chaperone protein SscB;	98.39
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.36
PLN02789	320	farnesyltranstransferase	98.31
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.3
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.29
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.29
KOG1125	579	consensus TPR repeat-containing protein [General f	98.29
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.29
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.28
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.28
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.27
PRK04841	903	transcriptional regulator MalT; Provisional	98.21
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.18
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.18
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.17
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.13
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.12
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.11
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.09
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.08
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.07
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.05
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.03
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.01
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.0
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.98
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.97
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.95
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.9
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.9
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.89
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.89
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.88
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.86
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.86
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.85
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.83
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.81
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.81
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.8
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.79
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.75
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.75
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.75
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.69
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.68
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.65
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.63
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.63
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.6
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.59
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.56
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.56
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.55
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.54
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.52
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.51
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.5
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.49
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.45
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.45
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.45
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.44
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.42
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.37
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.36
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.35
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.34
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.33
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.32
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.27
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.25
PF12688	120	TPR_5: Tetratrico peptide repeat	97.23
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.22
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.22
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.19
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.19
PF12688	120	TPR_5: Tetratrico peptide repeat	97.14
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.06
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.05
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.04
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.03
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.02
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.01
KOG0553	304	consensus TPR repeat-containing protein [General f	96.99
PRK10803	263	tol-pal system protein YbgF; Provisional	96.98
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.98
PRK10803	263	tol-pal system protein YbgF; Provisional	96.92
KOG0553	304	consensus TPR repeat-containing protein [General f	96.85
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.77
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.71
PF13371	73	TPR_9: Tetratricopeptide repeat	96.7
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.68
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.68
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.62
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.6
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.57
PF13371	73	TPR_9: Tetratricopeptide repeat	96.52
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.45
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.39
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.37
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.3
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.19
KOG3941	406	consensus Intermediate in Toll signal transduction	96.1
PRK15331	165	chaperone protein SicA; Provisional	96.09
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.02
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.96
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.92
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.91
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.77
KOG3941	406	consensus Intermediate in Toll signal transduction	95.74
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.73
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.7
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.68
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.49
PRK15331	165	chaperone protein SicA; Provisional	95.46
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.42
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.4
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.29
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.23
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.2
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.17
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.1
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.95
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.84
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.83
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.82
PF13512	142	TPR_18: Tetratricopeptide repeat	94.68
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	94.61
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	94.59
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.58
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.53
KOG1585	308	consensus Protein required for fusion of vesicles	94.43
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.42
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.4
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.37
PF13428	44	TPR_14: Tetratricopeptide repeat	94.36
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.23
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.22
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.21
PF13428	44	TPR_14: Tetratricopeptide repeat	94.09
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.05
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.93
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.89
KOG4555	175	consensus TPR repeat-containing protein [Function	93.52
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.51
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.42
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.36
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.29
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.25
PF13512	142	TPR_18: Tetratricopeptide repeat	93.19
COG3947	361	Response regulator containing CheY-like receiver a	93.19
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.14
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.13
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	93.11
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.98
KOG4555	175	consensus TPR repeat-containing protein [Function	92.78
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.78
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.52
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.13
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.57
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.51
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.5
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.12
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.07
KOG2041	1189	consensus WD40 repeat protein [General function pr	91.03
KOG1585	308	consensus Protein required for fusion of vesicles	91.03
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	90.98
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.76
PF13929	292	mRNA_stabil: mRNA stabilisation	90.49
PRK11906	458	transcriptional regulator; Provisional	90.32
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.04
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.92
PRK09687	280	putative lyase; Provisional	89.76
PRK09687	280	putative lyase; Provisional	89.7
KOG1941	518	consensus Acetylcholine receptor-associated protei	89.62
KOG1586	288	consensus Protein required for fusion of vesicles	89.53
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.52
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.48
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.42
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	89.31
PF13431	34	TPR_17: Tetratricopeptide repeat	89.25
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.05
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.05
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.88
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	88.8
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.48
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	87.79
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.72
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.53
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	87.44
PF13431	34	TPR_17: Tetratricopeptide repeat	87.21
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.2
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	87.03
PF13929	292	mRNA_stabil: mRNA stabilisation	86.98
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	86.81
COG0457	291	NrfG FOG: TPR repeat [General function prediction	86.79
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	86.46
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.23
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	85.91
PRK11906	458	transcriptional regulator; Provisional	85.44
COG3947	361	Response regulator containing CheY-like receiver a	85.38
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.35
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	85.26
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	84.75
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	84.32
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.13
KOG1941	518	consensus Acetylcholine receptor-associated protei	83.76
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.46
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	83.08
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	82.17
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	81.83
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	81.7
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	81.4
COG4455	273	ImpE Protein of avirulence locus involved in tempe	81.36
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	81.2
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	80.51

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

Probab=100.00  E-value=9.3e-60  Score=431.54  Aligned_cols=325  Identities=29%  Similarity=0.492  Sum_probs=318.2

Q ss_pred             CCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHH
Q 044786            5 CLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMI   84 (340)
Q Consensus         5 g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li   84 (340)
                      +..||..+|+.++.+|++.++++.+.+++..|.+. |+.||..+||.++.+|++.|++++|.++|++|.+||..+||.+|
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li  196 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESS-GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTII  196 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHH
Confidence            57899999999999999999999999999999999 99999999999999999999999999999999999999999999


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      .+|++.|++++|+++|++|.+.  |+   .|+..+|+.++.+|++.|..+.+.+++..+.+.|+.||..+|++|+++|++
T Consensus       197 ~~~~~~g~~~~A~~lf~~M~~~--g~---~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k  271 (697)
T PLN03081        197 GGLVDAGNYREAFALFREMWED--GS---DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSK  271 (697)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHh--CC---CCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHH
Confidence            9999999999999999999988  55   899999999999999999999999999999999999999999999999999


Q ss_pred             hcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHH
Q 044786          165 FRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHAN  244 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~  244 (340)
                      .|++++|.++|++|.++|+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++ +..++..
T Consensus       272 ~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~-a~~i~~~  350 (697)
T PLN03081        272 CGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEH-AKQAHAG  350 (697)
T ss_pred             CCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHH-HHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999977 9999999


Q ss_pred             HHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHH
Q 044786          245 IVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLI  324 (340)
Q Consensus       245 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~  324 (340)
                      +.+.|+.||..+|++||++|+++|++++|.++|++|. +||+.+||+||.+|++.|+.++|+++|++|.+.|+.||..||
T Consensus       351 m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~  429 (697)
T PLN03081        351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF  429 (697)
T ss_pred             HHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHH
Confidence            9999999999999999999999999999999999997 689999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCcc
Q 044786          325 NDLRIACSSISAS  337 (340)
Q Consensus       325 ~~ll~a~~~~g~~  337 (340)
                      +.+|.+|++.|..
T Consensus       430 ~~ll~a~~~~g~~  442 (697)
T PLN03081        430 LAVLSACRYSGLS  442 (697)
T ss_pred             HHHHHHHhcCCcH
Confidence            9999999999865

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.9e-59  Score=430.37  Aligned_cols=324  Identities=15%  Similarity=0.235  Sum_probs=309.9

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC----cCCcccHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP----LRDFNSWAVM   83 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l   83 (340)
                      ||..+|+.+|.+|++.|+++.|.++|+.|.+. |+.||..+|+.||.+|++.|++++|.++|++|.    .||..+|+.+
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~-Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaL  513 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL  513 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            89999999999999999999999999999999 999999999999999999999999999999998    5799999999


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHH--cCCCCchhHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFK--LGSSRNISLTGSLINF  161 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~  161 (340)
                      |.+|++.|++++|.++|++|.+.  |+   .||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|++++.+
T Consensus       514 I~gy~k~G~~eeAl~lf~~M~~~--Gv---~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~a  588 (1060)
T PLN03218        514 IDGCARAGQVAKAFGAYGIMRSK--NV---KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA  588 (1060)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHc--CC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            99999999999999999999988  55   89999999999999999999999999999986  6889999999999999


Q ss_pred             HHhhcCHHHHHHHHHHcccC----ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhch
Q 044786          162 YGKFRCLEDADFVFSQLKRH----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNC  237 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~  237 (340)
                      |++.|++++|.++|++|.+.    +..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++ 
T Consensus       589 y~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee-  667 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK-  667 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH-
Confidence            99999999999999999854    6689999999999999999999999999999999999999999999999999977 


Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc---CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD---KKNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      +..+++.|.+.|+.|+..+|++||.+|+++|++++|.++|++|..   .||..+||.||.+|++.|++++|+++|++|..
T Consensus       668 A~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~  747 (1060)
T PLN03218        668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR  747 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999975   58999999999999999999999999999999


Q ss_pred             cCCccchhHHHHHHHHhhhcCccc
Q 044786          315 SGIQIQESLINDLRIACSSISASK  338 (340)
Q Consensus       315 ~g~~~~~~t~~~ll~a~~~~g~~~  338 (340)
                      .|+.||..||+.+|.+|++.|..+
T Consensus       748 ~Gi~Pd~~Ty~sLL~a~~k~G~le  771 (1060)
T PLN03218        748 LGLCPNTITYSILLVASERKDDAD  771 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHHHCCCHH
Confidence            999999999999999999998643

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=9.7e-58  Score=422.31  Aligned_cols=327  Identities=16%  Similarity=0.205  Sum_probs=315.1

Q ss_pred             CCCCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC----cCC
Q 044786            1 MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP----LRD   76 (340)
Q Consensus         1 M~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~   76 (340)
                      |.+.|+.||..+|+.+|.+|++.|+++.|.++|+.|.+. |+.||..+|+.+|.+|++.|++++|.++|+.|.    .||
T Consensus       463 M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~-Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD  541 (1060)
T PLN03218        463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD  541 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCC
Confidence            567899999999999999999999999999999999999 999999999999999999999999999999996    578


Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTG  156 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  156 (340)
                      ..+|+.+|.+|++.|++++|.++|++|...+.|+   .||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+
T Consensus       542 ~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi---~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tyn  618 (1060)
T PLN03218        542 RVVFNALISACGQSGAVDRAFDVLAEMKAETHPI---DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT  618 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCC---CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHH
Confidence            9999999999999999999999999998764466   8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCHHHHHHHHHHcc----cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCC
Q 044786          157 SLINFYGKFRCLEDADFVFSQLK----RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVD  232 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  232 (340)
                      .+|.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|
T Consensus       619 sLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G  698 (1060)
T PLN03218        619 IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAK  698 (1060)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC
Confidence            99999999999999999999997    46899999999999999999999999999999999999999999999999999


Q ss_pred             chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc---CCcHHHHHHHHHHHHHcCchHHHHHHH
Q 044786          233 DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD---KKNIASWNAMLVGYIRNGLYVEATKFL  309 (340)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~  309 (340)
                      ++++ |..+++.|...|+.||..+|+.||.+|++.|++++|.++|++|..   .||..+|+.+|.+|++.|++++|.+++
T Consensus       699 ~~ee-A~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~  777 (1060)
T PLN03218        699 NWKK-ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLL  777 (1060)
T ss_pred             CHHH-HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9977 999999999999999999999999999999999999999999986   499999999999999999999999999


Q ss_pred             HHHHHcCCccchhHHHHHHHHhh
Q 044786          310 YLMKASGIQIQESLINDLRIACS  332 (340)
Q Consensus       310 ~~m~~~g~~~~~~t~~~ll~a~~  332 (340)
                      ++|.+.|+.||..+|++++..|.
T Consensus       778 ~~M~k~Gi~pd~~tynsLIglc~  800 (1060)
T PLN03218        778 SQAKEDGIKPNLVMCRCITGLCL  800 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHH
Confidence            99999999999999999997764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.3e-58  Score=428.26  Aligned_cols=327  Identities=25%  Similarity=0.420  Sum_probs=318.3

Q ss_pred             CCCCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            1 MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         1 M~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      |.+.|+.||..+|+.+|.+|++.|+.+.|.+++..|.+. |+.||..+||.||.+|++.|++++|.++|++|..||..+|
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~-g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~  357 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT-GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSW  357 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHh-CCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeH
Confidence            567899999999999999999999999999999999999 9999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLIN  160 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  160 (340)
                      |.+|.+|++.|++++|+++|++|.+.  |+   .||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|++
T Consensus       358 n~li~~~~~~g~~~~A~~lf~~M~~~--g~---~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~  432 (857)
T PLN03077        358 TAMISGYEKNGLPDKALETYALMEQD--NV---SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE  432 (857)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHh--CC---CCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            99999999999999999999999988  55   89999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHH
Q 044786          161 FYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ  240 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~  240 (340)
                      +|++.|++++|.++|++|.++|.++||.+|.+|++.|+.++|+.+|++|.. +++||..||+.+|.+|++.|.++. +..
T Consensus       433 ~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~-~~~  510 (857)
T PLN03077        433 MYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMC-GKE  510 (857)
T ss_pred             HHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHH-hHH
Confidence            999999999999999999999999999999999999999999999999986 599999999999999999999966 999


Q ss_pred             HHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccc
Q 044786          241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ  320 (340)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  320 (340)
                      ++..+.+.|+.++..++|+||++|+++|++++|+++|+++  .||..+||+||.+|++.|+.++|+++|++|.+.|+.||
T Consensus       511 i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd  588 (857)
T PLN03077        511 IHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD  588 (857)
T ss_pred             HHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Confidence            9999999999999999999999999999999999999999  89999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHhhhcCcc
Q 044786          321 ESLINDLRIACSSISAS  337 (340)
Q Consensus       321 ~~t~~~ll~a~~~~g~~  337 (340)
                      ..||+.+|.+|++.|..
T Consensus       589 ~~T~~~ll~a~~~~g~v  605 (857)
T PLN03077        589 EVTFISLLCACSRSGMV  605 (857)
T ss_pred             cccHHHHHHHHhhcChH
Confidence            99999999999999864

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.7e-57  Score=425.79  Aligned_cols=329  Identities=28%  Similarity=0.441  Sum_probs=308.6

Q ss_pred             CCCCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            1 MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         1 M~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      |.+.|++||..+|+.++++|+..+++..+.+++..|.+. |+.||..++|.||.+|++.|++++|.++|++|..+|..+|
T Consensus       178 M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~  256 (857)
T PLN03077        178 MLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRF-GFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISW  256 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHc-CCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchh
Confidence            345577777777777777777777777777777777777 7777788889999999999999999999999999999999


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLIN  160 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  160 (340)
                      |++|.+|++.|++++|+++|++|...  |+   .||..||+.++.+|++.|+++.+.+++..+.+.|+.||..+|++|+.
T Consensus       257 n~li~~~~~~g~~~eAl~lf~~M~~~--g~---~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~  331 (857)
T PLN03077        257 NAMISGYFENGECLEGLELFFTMREL--SV---DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQ  331 (857)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHc--CC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHH
Confidence            99999999999999999999999988  56   99999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHH
Q 044786          161 FYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ  240 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~  240 (340)
                      +|++.|++++|.++|++|.++|..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++ +..
T Consensus       332 ~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~-a~~  410 (857)
T PLN03077        332 MYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV-GVK  410 (857)
T ss_pred             HHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHH-HHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999976 999


Q ss_pred             HHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccc
Q 044786          241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ  320 (340)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  320 (340)
                      +++.+.+.|+.|+..+|++||++|+++|++++|.++|++|. ++|+.+||.+|.+|++.|++++|+++|++|.. ++.||
T Consensus       411 l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~-~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd  488 (857)
T PLN03077        411 LHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPN  488 (857)
T ss_pred             HHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCC
Confidence            99999999999999999999999999999999999999997 68999999999999999999999999999985 69999


Q ss_pred             hhHHHHHHHHhhhcCccc
Q 044786          321 ESLINDLRIACSSISASK  338 (340)
Q Consensus       321 ~~t~~~ll~a~~~~g~~~  338 (340)
                      ..||+.+|.+|++.|+.+
T Consensus       489 ~~t~~~lL~a~~~~g~l~  506 (857)
T PLN03077        489 SVTLIAALSACARIGALM  506 (857)
T ss_pred             HhHHHHHHHHHhhhchHH
Confidence            999999999999998653

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

Probab=100.00  E-value=1.4e-55  Score=404.06  Aligned_cols=323  Identities=20%  Similarity=0.288  Sum_probs=296.7

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhh----------------------------------cCCCCCHHHHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKR----------------------------------VNIKPTLLFLNRLL   53 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----------------------------------~g~~~~~~~~~~li   53 (340)
                      ||..+||.+|.+|++.|++++|.++|++|.+.                                  .|+.||..+||.||
T Consensus       187 ~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li  266 (697)
T PLN03081        187 RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALI  266 (697)
T ss_pred             CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHH
Confidence            56666677777766666666676666666554                                  04455566678899


Q ss_pred             HHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccch
Q 044786           54 LMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNM  133 (340)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  133 (340)
                      ++|+++|++++|.++|+.|.++|..+||.+|.+|++.|++++|.++|++|.+.  |+   .||..||+.++.+|++.|++
T Consensus       267 ~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~--g~---~pd~~t~~~ll~a~~~~g~~  341 (697)
T PLN03081        267 DMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDS--GV---SIDQFTFSIMIRIFSRLALL  341 (697)
T ss_pred             HHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc--CC---CCCHHHHHHHHHHHHhccch
Confidence            99999999999999999999999999999999999999999999999999988  56   89999999999999999999


Q ss_pred             hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcc
Q 044786          134 ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       134 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  213 (340)
                      ++|.+++..|.+.|+.||..+|++|+++|+++|++++|.++|++|.++|+.+||+||.+|++.|+.++|+++|++|.+.|
T Consensus       342 ~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g  421 (697)
T PLN03081        342 EHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG  421 (697)
T ss_pred             HHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCChhhHHHHHHhcccCCchhchHHHHHHHHHH-hCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHH
Q 044786          214 IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVK-IGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAM  292 (340)
Q Consensus       214 ~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l  292 (340)
                      +.||..||+.++.+|++.|..++ +..+++.|.+ .|+.|+..+|+.++++|++.|++++|.++++++..+|+..+|++|
T Consensus       422 ~~Pd~~T~~~ll~a~~~~g~~~~-a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~L  500 (697)
T PLN03081        422 VAPNHVTFLAVLSACRYSGLSEQ-GWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAAL  500 (697)
T ss_pred             CCCCHHHHHHHHHHHhcCCcHHH-HHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHH
Confidence            99999999999999999999977 8999999875 699999999999999999999999999999999888999999999


Q ss_pred             HHHHHHcCchHHHHHHHHHHHHcCCccc-hhHHHHHHHHhhhcCccc
Q 044786          293 LVGYIRNGLYVEATKFLYLMKASGIQIQ-ESLINDLRIACSSISASK  338 (340)
Q Consensus       293 i~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~t~~~ll~a~~~~g~~~  338 (340)
                      +.+|...|+++.|..+++++.  ++.|+ ..+|..+++.|++.|..+
T Consensus       501 l~a~~~~g~~~~a~~~~~~l~--~~~p~~~~~y~~L~~~y~~~G~~~  545 (697)
T PLN03081        501 LTACRIHKNLELGRLAAEKLY--GMGPEKLNNYVVLLNLYNSSGRQA  545 (697)
T ss_pred             HHHHHHcCCcHHHHHHHHHHh--CCCCCCCcchHHHHHHHHhCCCHH
Confidence            999999999999999999996  45664 679999999999999753

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=6.6e-24  Score=183.29  Aligned_cols=302  Identities=11%  Similarity=0.085  Sum_probs=251.8

Q ss_pred             HhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCC-------cccHHHHHHHHHccc
Q 044786           19 ECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRD-------FNSWAVMIVGYVDVA   91 (340)
Q Consensus        19 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~li~~~~~~g   91 (340)
                      .+...|++++|.+.|+.+.+.  -+.+..++..+...+.+.|++++|.++++.+....       ...+..+...|.+.|
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            456779999999999999976  34466789999999999999999999999887432       135778899999999


Q ss_pred             ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCch----hHHHHHHHHHHhhcC
Q 044786           92 DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNI----SLTGSLINFYGKFRC  167 (340)
Q Consensus        92 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~  167 (340)
                      ++++|.++|+++.+..      +++..++..++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|+
T Consensus       122 ~~~~A~~~~~~~l~~~------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  195 (389)
T PRK11788        122 LLDRAEELFLQLVDEG------DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD  195 (389)
T ss_pred             CHHHHHHHHHHHHcCC------cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence            9999999999998763      567789999999999999999999999999887654322    245667888899999


Q ss_pred             HHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHH
Q 044786          168 LEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHAN  244 (340)
Q Consensus       168 ~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~  244 (340)
                      +++|...|+++.+.   +...+..+...+.+.|++++|.++|+++.+.+......++..+..+|...|+.++ +...++.
T Consensus       196 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~-A~~~l~~  274 (389)
T PRK11788        196 LDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAE-GLEFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHH-HHHHHHH
Confidence            99999999998643   4567888899999999999999999999876432234668889999999999977 7777777


Q ss_pred             HHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHHHH---cCchHHHHHHHHHHHHcCCccc
Q 044786          245 IVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGYIR---NGLYVEATKFLYLMKASGIQIQ  320 (340)
Q Consensus       245 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~g~~~~  320 (340)
                      +.+.  .|+...+..+...+.+.|++++|.++++++.. .|+..+++.++..+..   .|+.++++.++++|..++++|+
T Consensus       275 ~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~  352 (389)
T PRK11788        275 ALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRK  352 (389)
T ss_pred             HHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCC
Confidence            7665  46666778999999999999999999998765 5888899999988775   5689999999999999999988


Q ss_pred             hhHHHHHHHHhhhcCcc
Q 044786          321 ESLINDLRIACSSISAS  337 (340)
Q Consensus       321 ~~t~~~ll~a~~~~g~~  337 (340)
                      +.      ..|.+.|..
T Consensus       353 p~------~~c~~cg~~  363 (389)
T PRK11788        353 PR------YRCRNCGFT  363 (389)
T ss_pred             CC------EECCCCCCC
Confidence            87      447777654

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

Probab=99.91  E-value=1.3e-20  Score=179.73  Aligned_cols=313  Identities=11%  Similarity=0.018  Sum_probs=186.3

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGY   87 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   87 (340)
                      ..+..+...+.+.|++++|.++++.+...  .+.+...|..+...+.+.|++++|.+.|+.+.+   .+...+..+...+
T Consensus       568 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  645 (899)
T TIGR02917       568 EPALALAQYYLGKGQLKKALAILNEAADA--APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAY  645 (899)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            33444445555555555555555555433  233445555555555555555555555555432   1333455555555


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                      ...|++++|...|+++.+..      +.+..++..+...+...|++++|.++++.+.+... .+...+..+...+...|+
T Consensus       646 ~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~  718 (899)
T TIGR02917       646 AVMKNYAKAITSLKRALELK------PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKD  718 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhcC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCC
Confidence            55555555555555555442      23344555555555555555555555555555442 244455555566666666


Q ss_pred             HHHHHHHHHHccc--CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          168 LEDADFVFSQLKR--HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       168 ~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      +++|.+.|+.+.+  |+..++..+..++.+.|++++|...++++.+.. +.+...+..+...|...|+.++ +...++.+
T Consensus       719 ~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~-A~~~~~~~  796 (899)
T TIGR02917       719 YPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDK-AIKHYRTV  796 (899)
T ss_pred             HHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHH-HHHHHHHH
Confidence            6666666665542  333445556666666666666666666665542 2344555666666666676655 55666655


Q ss_pred             HHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhH
Q 044786          246 VKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESL  323 (340)
Q Consensus       246 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t  323 (340)
                      .+.. +.++.+++.+...+.+.|+ .+|..++++...  +.+..++..+...+...|++++|.+.|+++.+.+.. +..+
T Consensus       797 ~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~  873 (899)
T TIGR02917       797 VKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAI  873 (899)
T ss_pred             HHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHH
Confidence            5543 3466666777777777777 667777766654  235566777788888899999999999999887754 8888


Q ss_pred             HHHHHHHhhhcCcc
Q 044786          324 INDLRIACSSISAS  337 (340)
Q Consensus       324 ~~~ll~a~~~~g~~  337 (340)
                      +..+..++...|..
T Consensus       874 ~~~l~~~~~~~g~~  887 (899)
T TIGR02917       874 RYHLALALLATGRK  887 (899)
T ss_pred             HHHHHHHHHHcCCH
Confidence            88888888888764

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.

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

Probab=99.90  E-value=6.8e-20  Score=174.87  Aligned_cols=316  Identities=12%  Similarity=0.026  Sum_probs=176.0

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHH-
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAV-   82 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~-   82 (340)
                      +.++..+..+...+...|++++|.+.|+.+.+.  .+.+...+..+...+...|++++|.+.|+.+..   .+..++.. 
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  539 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSI--EPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILAL  539 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence            445556666666666666666666666665543  222344444555555555555555555555432   12233444 


Q ss_pred             ---------------------------------HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh
Q 044786           83 ---------------------------------MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC  129 (340)
Q Consensus        83 ---------------------------------li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (340)
                                                       +...+...|++++|.++++++....      +.+..+|..+...+..
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~  613 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA------PDSPEAWLMLGRAQLA  613 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC------CCCHHHHHHHHHHHHH
Confidence                                             4444444444444444444444331      3344455555555555


Q ss_pred             ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHH
Q 044786          130 TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       130 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                      .|++++|...++.+.+... .+...+..+...|.+.|++++|...|+++.+.   +..++..+...+...|++++|..++
T Consensus       614 ~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       614 AGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             cCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5556666555555554432 23444555555555556666666655554322   3445555556666666666666666


Q ss_pred             HHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CC
Q 044786          207 KEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KK  284 (340)
Q Consensus       207 ~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~  284 (340)
                      +.+.+.+ +++...+..+...+...|++++ +...+..+...+  |+..++..+..++.+.|++++|.+.++.+..  +.
T Consensus       693 ~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~-A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~  768 (899)
T TIGR02917       693 KSLQKQH-PKAALGFELEGDLYLRQKDYPA-AIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN  768 (899)
T ss_pred             HHHHhhC-cCChHHHHHHHHHHHHCCCHHH-HHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            6665543 2334455555566666666655 555555544432  3335555666667777777777777766654  23


Q ss_pred             cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCc
Q 044786          285 NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISA  336 (340)
Q Consensus       285 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~  336 (340)
                      +...+..+...|...|++++|.+.|+++.+.. +.+...+..+...+...|.
T Consensus       769 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  819 (899)
T TIGR02917       769 DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD  819 (899)
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc
Confidence            56667777777777777777777777776654 3455566666666655554

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=2.4e-19  Score=154.88  Aligned_cols=273  Identities=10%  Similarity=-0.042  Sum_probs=223.2

Q ss_pred             HHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhc
Q 044786           54 LMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCT  130 (340)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (340)
                      ..+...|++++|.+.|+++.+.   +..++..+...+...|++++|..+++.+.... .. .......++..+...+.+.
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~-~~-~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRP-DL-TREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCC-CC-CHHHHHHHHHHHHHHHHHC
Confidence            3456789999999999999843   34468889999999999999999999998752 11 0011235788899999999


Q ss_pred             cchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC--------hhhHHHHHHHHhccCchhHH
Q 044786          131 MNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN--------TVVWTAKIVNNCREGHFHQV  202 (340)
Q Consensus       131 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~li~~~~~~~~~~~a  202 (340)
                      |+++.|..+|+.+.+.. ..+..++..++..+.+.|++++|.+.++.+.+.+        ...+..+...+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            99999999999998764 3467789999999999999999999999986532        12356677888899999999


Q ss_pred             HHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          203 FNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       203 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      ...|+++.+.. +.+...+..+...+.+.|++++ +..+++.+...+......+++.++.+|.+.|++++|.+.++++..
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~-A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAA-AIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999998753 2235567778888999999977 778888877654333456788999999999999999999999876


Q ss_pred             -CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhh
Q 044786          283 -KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSS  333 (340)
Q Consensus       283 -~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~  333 (340)
                       .|+...+..+...+.+.|++++|.++++++...  .|+..++..++..+..
T Consensus       278 ~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~  327 (389)
T PRK11788        278 EYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLA  327 (389)
T ss_pred             hCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhh
Confidence             577777789999999999999999999998876  6999999988877654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=1e-16  Score=145.72  Aligned_cols=289  Identities=8%  Similarity=-0.012  Sum_probs=135.8

Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHcc
Q 044786           14 TCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDV   90 (340)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~   90 (340)
                      ..++.+....|+++.|.+.++.+...  -+.+...+..+...+.+.|++++|...+++...  | +...+..+...+...
T Consensus        80 ~~l~~~~l~~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~  157 (656)
T PRK15174         80 RRWVISPLASSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLM  157 (656)
T ss_pred             HHHhhhHhhcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            33334444455555555555555543  222334444455555555555555555555442  2 233444555555555


Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      |++++|...++.+....      +.+...+..+ ..+...|++++|...++.+.+....++...+..+...+...|++++
T Consensus       158 g~~~eA~~~~~~~~~~~------P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~e  230 (656)
T PRK15174        158 DKELQAISLARTQAQEV------PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQE  230 (656)
T ss_pred             CChHHHHHHHHHHHHhC------CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHH
Confidence            55555555555554441      1111122111 2244455555555555555444322233333334445555555555


Q ss_pred             HHHHHHHcccC---ChhhHHHHHHHHhccCchhH----HHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHH
Q 044786          171 ADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQ----VFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMH  242 (340)
Q Consensus       171 a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~----a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~  242 (340)
                      |...+++..+.   +...+..+...+...|++++    |...|++..+.  .|+ ...+..+...+...|++++ +...+
T Consensus       231 A~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~e-A~~~l  307 (656)
T PRK15174        231 AIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEK-AIPLL  307 (656)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHH-HHHHH
Confidence            55555554321   33444555555555555553    45555555542  232 3344455555555555544 44444


Q ss_pred             HHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHH-HHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          243 ANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIAS-WNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       243 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +...... +.+...+..+...|.+.|++++|.+.++.+.. .|+... +..+..++...|++++|.+.|++..+.
T Consensus       308 ~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        308 QQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            4444322 22334444555555555555555555555543 233222 222344455555566665555555444

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=3.1e-16  Score=142.69  Aligned_cols=310  Identities=9%  Similarity=-0.020  Sum_probs=243.6

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHc
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVD   89 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~   89 (340)
                      ...++..+.+.|+++.|..+++.....  .+-+......+..+....|++++|.+.|+++..  | +...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~--~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLT--AKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHh--CCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            345677788999999999999999987  444556666777777889999999999999873  3 45578888899999


Q ss_pred             ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH
Q 044786           90 VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE  169 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (340)
                      .|++++|...+++.....      +.+...+..+...+...|++++|...++.+......+.. .+..+ ..+...|+++
T Consensus       123 ~g~~~~Ai~~l~~Al~l~------P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~-a~~~~-~~l~~~g~~~  194 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF------SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD-MIATC-LSFLNKSRLP  194 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH-HHHHH-HHHHHcCCHH
Confidence            999999999999999873      445678888999999999999999999988777654333 33333 3478899999


Q ss_pred             HHHHHHHHcccC----ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhch---HHHHH
Q 044786          170 DADFVFSQLKRH----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNC---GRQMH  242 (340)
Q Consensus       170 ~a~~~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~---~~~~~  242 (340)
                      +|...++.+.+.    +...+..+..++...|++++|+..+++..+.. +.+...+..+-..+...|+++++   +...+
T Consensus       195 eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~  273 (656)
T PRK15174        195 EDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHW  273 (656)
T ss_pred             HHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHH
Confidence            999999997654    23344556778889999999999999998753 22455677788888999998652   67777


Q ss_pred             HHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccc
Q 044786          243 ANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ  320 (340)
Q Consensus       243 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  320 (340)
                      +...... +.+...+..+...+.+.|++++|...+++... .| +...+..+...|.+.|++++|++.|+++...  .|+
T Consensus       274 ~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~  350 (656)
T PRK15174        274 RHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGV  350 (656)
T ss_pred             HHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--Ccc
Confidence            7776653 34678899999999999999999999999876 34 5667888899999999999999999999876  355


Q ss_pred             hhHH-HHHHHHhhhcCc
Q 044786          321 ESLI-NDLRIACSSISA  336 (340)
Q Consensus       321 ~~t~-~~ll~a~~~~g~  336 (340)
                      ...+ ..+-.++...|.
T Consensus       351 ~~~~~~~~a~al~~~G~  367 (656)
T PRK15174        351 TSKWNRYAAAALLQAGK  367 (656)
T ss_pred             chHHHHHHHHHHHHCCC
Confidence            4332 223345555554

>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=99.74  E-value=2.6e-14  Score=130.30  Aligned_cols=320  Identities=9%  Similarity=-0.074  Sum_probs=171.7

Q ss_pred             CCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-----------
Q 044786            6 LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-----------   74 (340)
Q Consensus         6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----------   74 (340)
                      +.|++..|..+..+|.+.|++++|++.++...+.  -+.+...+..+..+|...|++++|+.-|.....           
T Consensus       156 ~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~  233 (615)
T TIGR00990       156 CKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQ  233 (615)
T ss_pred             cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHH
Confidence            3456666667777777777777777777777654  223455666667777777777776543322110           


Q ss_pred             ----------------------CCcccHHHHHHH--------------------------H----------HcccChhHH
Q 044786           75 ----------------------RDFNSWAVMIVG--------------------------Y----------VDVADYQEC   96 (340)
Q Consensus        75 ----------------------~~~~~~~~li~~--------------------------~----------~~~g~~~~a   96 (340)
                                            ++...+..+...                          +          ...+++++|
T Consensus       234 ~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A  313 (615)
T TIGR00990       234 AVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEA  313 (615)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHH
Confidence                                  000000000000                          0          011345566


Q ss_pred             HHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      .+.|++..+.+ ..  .+.....+..+...+...|++++|...++...+.... ....|..+...+...|++++|...|+
T Consensus       314 ~~~~~~al~~~-~~--~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~  389 (615)
T TIGR00990       314 ARAFEKALDLG-KL--GEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFD  389 (615)
T ss_pred             HHHHHHHHhcC-CC--ChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            66666665542 11  0223445666666666677777777777766665422 34456666666667777777777776


Q ss_pred             HcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc
Q 044786          177 QLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES  252 (340)
Q Consensus       177 ~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (340)
                      +..+.   +...|..+...+...|++++|...|++..+.  .|+ ...+..+...+.+.|++++ +...++...+. .+.
T Consensus       390 ~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~e-A~~~~~~al~~-~P~  465 (615)
T TIGR00990       390 KALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIAS-SMATFRRCKKN-FPE  465 (615)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHh-CCC
Confidence            65422   4556666666666677777777777666653  233 3445555556666666655 55555544432 233


Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCc-HH-------HHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhH
Q 044786          253 DEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKN-IA-------SWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESL  323 (340)
Q Consensus       253 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~-~~-------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t  323 (340)
                      ++..++.+...+...|++++|.+.|+.... .|+ ..       .++.....+...|++++|.+++++..... ..+...
T Consensus       466 ~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a  544 (615)
T TIGR00990       466 APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIA  544 (615)
T ss_pred             ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHH
Confidence            455666666666666666666666666543 121 00       11111122233466666666666654442 112234


Q ss_pred             HHHHHHHhhhcCc
Q 044786          324 INDLRIACSSISA  336 (340)
Q Consensus       324 ~~~ll~a~~~~g~  336 (340)
                      +..+-..+...|.
T Consensus       545 ~~~la~~~~~~g~  557 (615)
T TIGR00990       545 VATMAQLLLQQGD  557 (615)
T ss_pred             HHHHHHHHHHccC
Confidence            4445555555443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.72  E-value=5.2e-14  Score=114.50  Aligned_cols=312  Identities=14%  Similarity=0.149  Sum_probs=195.7

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC--ChhH-HHH-------------------
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG--QLDT-ARQ-------------------   67 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~--~~~~-a~~-------------------   67 (340)
                      +++=|.+++. ...|.++.+.-+|+.|.+. |.+.+...-..|+..-+-.+  ++-- -++                   
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e-~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G  193 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSE-NVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSG  193 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhc-CCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccc
Confidence            3444556554 4678999999999999999 99888887777776544322  1111 112                   


Q ss_pred             ----HHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHH
Q 044786           68 ----LFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLL  143 (340)
Q Consensus        68 ----~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  143 (340)
                          ++-+...+...+|.+||.++++-...+.|.+++++-....  .   +.+..+||.+|.+-.-.    ...+++.+|
T Consensus       194 ~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k--~---kv~~~aFN~lI~~~S~~----~~K~Lv~EM  264 (625)
T KOG4422|consen  194 AVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAK--G---KVYREAFNGLIGASSYS----VGKKLVAEM  264 (625)
T ss_pred             cHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhh--h---eeeHHhhhhhhhHHHhh----ccHHHHHHH
Confidence                3333333456678888888888888888888888877663  2   67778888887765433    226777888


Q ss_pred             HHcCCCCchhHHHHHHHHHHhhcCHHHHH----HHHHHcc----cCChhhHHHHHHHHhccCchhH-HHHHHHHHh----
Q 044786          144 FKLGSSRNISLTGSLINFYGKFRCLEDAD----FVFSQLK----RHNTVVWTAKIVNNCREGHFHQ-VFNDFKEMG----  210 (340)
Q Consensus       144 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~----~~~~~~~----~~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~----  210 (340)
                      .+..+.||..|+|+++.+..+.|+++.|.    +++.+|+    +|...+|..+|..+++.+++.+ |..++.++.    
T Consensus       265 isqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~lt  344 (625)
T KOG4422|consen  265 ISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLT  344 (625)
T ss_pred             HHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhc
Confidence            88888888888888888888888766543    4444454    4566677777777777666543 333333332    


Q ss_pred             hcccCC----ChhhHHHHHHhcccCCchhchHHHHHHHHHHh----CCCcc---HHHHHHHHHHHhccCCHHHHHHHHHH
Q 044786          211 RERIKK----NSYTFSSVLKACGGVDDDGNCGRQMHANIVKI----GLESD---EYVQCGLVDMYGKCRLLRDAERVFEL  279 (340)
Q Consensus       211 ~~~~~p----~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~  279 (340)
                      .+.++|    |..-|...+..|.+..+. +.|..+...+...    -+.|+   ..-|..+....|+...++.-...++.
T Consensus       345 GK~fkp~~p~d~~FF~~AM~Ic~~l~d~-~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~  423 (625)
T KOG4422|consen  345 GKTFKPITPTDNKFFQSAMSICSSLRDL-ELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYED  423 (625)
T ss_pred             cCcccCCCCchhHHHHHHHHHHHHhhhH-HHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            223333    223345556666666654 4466666655432    12222   22345556666666667777777776


Q ss_pred             hhcC---CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhh
Q 044786          280 IVDK---KNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSS  333 (340)
Q Consensus       280 ~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~  333 (340)
                      |..+   |+..+...++++.--.+.++-.-+++.+|+..|..-+...-..++.-.++
T Consensus       424 lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~  480 (625)
T KOG4422|consen  424 LVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLAR  480 (625)
T ss_pred             hccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhc
Confidence            6542   56666666777777777777777777777777765555555444444443

>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=99.72  E-value=6.4e-14  Score=127.76  Aligned_cols=296  Identities=10%  Similarity=-0.044  Sum_probs=227.6

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHc
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVD   89 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~   89 (340)
                      +......+.+.|+++.|++.|+....   +.|+...|..+..+|.+.|++++|++.++...+.   +...|..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~---~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE---CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            44566778889999999999999885   4688889999999999999999999999988743   44478888999999


Q ss_pred             ccChhHHHHHHHHHHHhhcCC----------------------------ccccchHHHHHHHHH----------------
Q 044786           90 VADYQECITLFAEMMKRKKGH----------------------------MLLVFPAWIIVCVLK----------------  125 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~~~~~----------------------------~~~~~~~~~~~~ll~----------------  125 (340)
                      .|++++|+.-|......+ +.                            +...|..........                
T Consensus       207 lg~~~eA~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       207 LGKYADALLDLTASCIID-GFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            999999987765543321 00                            000000000000000                


Q ss_pred             -------Hh----------hhccchhhHHHHHHHHHHcC-CCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---Ch
Q 044786          126 -------AC----------VCTMNMELGKQVHGLLFKLG-SSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH---NT  183 (340)
Q Consensus       126 -------~~----------~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~  183 (340)
                             ++          ...+++++|.+.|+...+.+ ..| ....+..+...+...|++++|...|++..+.   ..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~  365 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVT  365 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcH
Confidence                   00          11246888999999888765 233 4557888888999999999999999997643   35


Q ss_pred             hhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHH
Q 044786          184 VVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVD  262 (340)
Q Consensus       184 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~  262 (340)
                      ..|..+...+...|++++|...|++..+.  .| +...|..+...+...|++++ +...++...... +.+...+..+..
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~-A~~~~~kal~l~-P~~~~~~~~la~  441 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQ-AGKDYQKSIDLD-PDFIFSHIQLGV  441 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHcC-ccCHHHHHHHHH
Confidence            57888889999999999999999999875  34 46778888888999999977 777777766643 336777888899


Q ss_pred             HHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          263 MYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       263 ~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      .+.+.|++++|...|++... .| +...|+.+...+...|++++|++.|++.....
T Consensus       442 ~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       442 TQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            99999999999999998875 34 67889999999999999999999999987653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.72  E-value=5.8e-14  Score=136.27  Aligned_cols=62  Identities=10%  Similarity=0.082  Sum_probs=30.9

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          253 DEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       253 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      +...+..+...|...|++++|.+.++.+...  .+...+..+..++...|++++|.++++++..
T Consensus       636 ~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        636 NADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            3444455555555555555555555544431  2333444444555555555555555555544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.71  E-value=1.1e-13  Score=134.40  Aligned_cols=220  Identities=9%  Similarity=-0.006  Sum_probs=149.8

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH----
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL----  158 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----  158 (340)
                      +...+...|++++|++.|++..+..      +-+...+..+...+.+.|++++|...++.+.+.... +...+..+    
T Consensus       467 ~a~~~~~~g~~~eA~~~~~~Al~~~------P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l  539 (1157)
T PRK11447        467 QAEALENQGKWAQAAELQRQRLALD------PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYL  539 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHH
Confidence            3445556788888888888888773      334556777778888888888888888887765432 22222222    


Q ss_pred             ----------------------------------------HHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCc
Q 044786          159 ----------------------------------------INFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGH  198 (340)
Q Consensus       159 ----------------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~  198 (340)
                                                              .+.+...|+.++|.++++. ...+...+..+...+.+.|+
T Consensus       540 ~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-~p~~~~~~~~La~~~~~~g~  618 (1157)
T PRK11447        540 SGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-QPPSTRIDLTLADWAQQRGD  618 (1157)
T ss_pred             HhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-CCCCchHHHHHHHHHHHcCC
Confidence                                                    2233344445555554442 11234456667778888899


Q ss_pred             hhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHH
Q 044786          199 FHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVF  277 (340)
Q Consensus       199 ~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  277 (340)
                      +++|+..|++..+.  .| +...+..+...+...|+.++ +...++...... +.+..++..+..++.+.|++++|.+++
T Consensus       619 ~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~e-A~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~  694 (1157)
T PRK11447        619 YAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAA-ARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTF  694 (1157)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHH-HHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHH
Confidence            99999999988875  34 45677788888888899877 767776655431 234556667778888899999999999


Q ss_pred             HHhhcC-C-------cHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          278 ELIVDK-K-------NIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       278 ~~~~~~-~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      +.+... |       +...+..+...+...|++++|++.|++...
T Consensus       695 ~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        695 NRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            988652 1       223555667778889999999999988864

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=4.4e-13  Score=109.22  Aligned_cols=306  Identities=12%  Similarity=0.048  Sum_probs=193.0

Q ss_pred             CCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHH
Q 044786            6 LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIV   85 (340)
Q Consensus         6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~   85 (340)
                      .|-+..+|..+|.+.|+-...++|.+++..-... ..+.+..+||.+|.+-.-..+-+..-++...=..||..|+|++++
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~-k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAA-KGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHh-hheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHH
Confidence            4667889999999999999999999999999888 788899999999987665544333333333334789999999999


Q ss_pred             HHHcccChhH----HHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhh-HHHHHHHHHHc----CCCC----ch
Q 044786           86 GYVDVADYQE----CITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMEL-GKQVHGLLFKL----GSSR----NI  152 (340)
Q Consensus        86 ~~~~~g~~~~----a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~----~~~~----~~  152 (340)
                      +..+.|+++.    |.+++.+|++.  |+   .|.-.+|..+|..+.+.++..+ +..+..++...    .++|    +.
T Consensus       282 c~akfg~F~~ar~aalqil~EmKei--GV---ePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~  356 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEI--GV---EPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDN  356 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHh--CC---CcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchh
Confidence            9999998765    56777888888  66   8999999999999988887644 44444444332    2332    34


Q ss_pred             hHHHHHHHHHHhhcCHHHHHHHHHHcccC-----------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhH
Q 044786          153 SLTGSLINFYGKFRCLEDADFVFSQLKRH-----------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTF  221 (340)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  221 (340)
                      ..|.+.+..|.+..+.+-|.++-.-....           ...-|..+....|+....+.-+..|+.|+-.-.-|+..+-
T Consensus       357 ~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m  436 (625)
T KOG4422|consen  357 KFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTM  436 (625)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhH
Confidence            45667777788888888887775544321           1112344445555555555555555555544444555555


Q ss_pred             HHHHHhcccCCchhchHHHHHHHHHHhCCC--------------------------------------------------
Q 044786          222 SSVLKACGGVDDDGNCGRQMHANIVKIGLE--------------------------------------------------  251 (340)
Q Consensus       222 ~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------------  251 (340)
                      ..++.+....+.+ +....++..++..|..                                                  
T Consensus       437 ~~~lrA~~v~~~~-e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~  515 (625)
T KOG4422|consen  437 IHLLRALDVANRL-EVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQ  515 (625)
T ss_pred             HHHHHHHhhcCcc-hhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            5555555444444 2233333333333322                                                  


Q ss_pred             ----ccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC----CcHHHHH---HHHHHHHHcCchHHHHHHHHHHHHcCCc
Q 044786          252 ----SDEYVQCGLVDMYGKCRLLRDAERVFELIVDK----KNIASWN---AMLVGYIRNGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       252 ----~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~---~li~~~~~~~~~~~a~~~~~~m~~~g~~  318 (340)
                          ..+...+.+.-.+.+.|+.++|+++|..+..+    |-....|   -++.+-.+.+....|+.+++-|...++.
T Consensus       516 r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~  593 (625)
T KOG4422|consen  516 RAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLP  593 (625)
T ss_pred             HhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCch
Confidence                22233444555556667777777776666332    2222233   3344445556666666666666555443

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.68  E-value=1.3e-14  Score=123.19  Aligned_cols=293  Identities=13%  Similarity=0.023  Sum_probs=169.2

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH---HHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW---AVM   83 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~l   83 (340)
                      .-.++|..+.+.+-..|++++|+.+++.+.+.   +| ....|..+..++...|+.+.|.+.|.+..+-|+..|   +.+
T Consensus       114 q~ae~ysn~aN~~kerg~~~~al~~y~~aiel---~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~l  190 (966)
T KOG4626|consen  114 QGAEAYSNLANILKERGQLQDALALYRAAIEL---KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDL  190 (966)
T ss_pred             hHHHHHHHHHHHHHHhchHHHHHHHHHHHHhc---CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcch
Confidence            34578888999999999999999999999865   44 567888888888888998888888877664333211   112


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      -..+...|+.++|...|.+..+..      +--...|+.|...+-..|+...|++.|++.++.... -...|-.|...|.
T Consensus       191 gnLlka~Grl~ea~~cYlkAi~~q------p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~k  263 (966)
T KOG4626|consen  191 GNLLKAEGRLEEAKACYLKAIETQ------PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYK  263 (966)
T ss_pred             hHHHHhhcccchhHHHHHHHHhhC------CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHH
Confidence            222333455555555555555442      222334444444444555555555555554444322 2233444444444


Q ss_pred             h----------------------------------hcCHHHHHHHHHHcccC--C-hhhHHHHHHHHhccCchhHHHHHH
Q 044786          164 K----------------------------------FRCLEDADFVFSQLKRH--N-TVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       164 ~----------------------------------~~~~~~a~~~~~~~~~~--~-~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                      .                                  .|.++-|...|++..+.  + ...|+.|..++-..|++.+|.+.|
T Consensus       264 e~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cY  343 (966)
T KOG4626|consen  264 EARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCY  343 (966)
T ss_pred             HHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHH
Confidence            4                                  44555555555444322  1 234666666666666666666666


Q ss_pred             HHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-C
Q 044786          207 KEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD-K  283 (340)
Q Consensus       207 ~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~  283 (340)
                      .+....  .|+ ....+.+-..+...|.+++ +..++......  .| -....+.|...|-++|++++|..-+++... +
T Consensus       344 nkaL~l--~p~hadam~NLgni~~E~~~~e~-A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~  418 (966)
T KOG4626|consen  344 NKALRL--CPNHADAMNNLGNIYREQGKIEE-ATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIK  418 (966)
T ss_pred             HHHHHh--CCccHHHHHHHHHHHHHhccchH-HHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcC
Confidence            655542  343 2344555566666666644 44444443332  22 234556666666666666666666666554 3


Q ss_pred             Cc-HHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          284 KN-IASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       284 ~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      |+ ...|+.+.+.|-..|+.+.|++.+.+.+.-
T Consensus       419 P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~  451 (966)
T KOG4626|consen  419 PTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI  451 (966)
T ss_pred             chHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc
Confidence            43 346666666677777777777666665543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.66  E-value=2.4e-12  Score=119.85  Aligned_cols=302  Identities=10%  Similarity=-0.060  Sum_probs=204.8

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMI   84 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li   84 (340)
                      .+...+..+...+...|++++|.++|+...+.  -+.+...+..+...+...|++++|...+++..+  | +.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHH
Confidence            33445788888889999999999999998866  344567777888888999999999999988763  2 445 77788


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhh-----------------------------
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMEL-----------------------------  135 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-----------------------------  135 (340)
                      ..+...|+.++|+..++++.+..      +-+...+..+..++...+..+.                             
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~------P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~  197 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRA------PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRL  197 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHh
Confidence            88889999999999999998873      2233344444444444444433                             


Q ss_pred             -----------------HHHHHHHHHHc-CCCCchh-HHH----HHHHHHHhhcCHHHHHHHHHHcccCC---h-hhHHH
Q 044786          136 -----------------GKQVHGLLFKL-GSSRNIS-LTG----SLINFYGKFRCLEDADFVFSQLKRHN---T-VVWTA  188 (340)
Q Consensus       136 -----------------a~~~~~~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~  188 (340)
                                       |.+.++.+.+. ...|+.. .+.    ..+..+...|++++|...|+.+.+.+   . ..-..
T Consensus       198 ~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~  277 (765)
T PRK10049        198 SFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRW  277 (765)
T ss_pred             hcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHH
Confidence                             33444444432 1222221 111    11234456688999999999887542   1 11222


Q ss_pred             HHHHHhccCchhHHHHHHHHHhhcccCC---ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCC-----------Ccc-
Q 044786          189 KIVNNCREGHFHQVFNDFKEMGRERIKK---NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGL-----------ESD-  253 (340)
Q Consensus       189 li~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~-  253 (340)
                      +...|...|++++|+..|+++.+.....   .......+..++...|++++ +...++.+.....           .|+ 
T Consensus       278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~e-A~~~l~~~~~~~P~~~~~~~~~~~~p~~  356 (765)
T PRK10049        278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPG-ALTVTAHTINNSPPFLRLYGSPTSIPND  356 (765)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHH-HHHHHHHHhhcCCceEeecCCCCCCCCc
Confidence            4668888999999999999887642111   12345566667788888877 6666666655421           122 


Q ss_pred             --HHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch
Q 044786          254 --EYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE  321 (340)
Q Consensus       254 --~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  321 (340)
                        ...+..+...+...|++++|+++++++..  +.+...+..+...+...|++++|++.+++....  .|+.
T Consensus       357 ~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~  426 (765)
T PRK10049        357 DWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRN  426 (765)
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCC
Confidence              23455677788888999999999988776  346778888888888899999999999887765  4554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.64  E-value=4.9e-12  Score=117.77  Aligned_cols=316  Identities=8%  Similarity=-0.013  Sum_probs=213.1

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVM   83 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l   83 (340)
                      +.++....-.+......|+.++|++++......  -+.+...+..+...+.+.|++++|.++|++..   ..+...+..+
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~--~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~l   89 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVH--MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGL   89 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            455666677788888999999999999999864  25566678999999999999999999999965   3345567788


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      ...+...|++++|+..+++..+..      +.+.. +..+..++...|+.++|...++++.+..+. +...+..+..++.
T Consensus        90 a~~l~~~g~~~eA~~~l~~~l~~~------P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~  161 (765)
T PRK10049         90 ILTLADAGQYDEALVKAKQLVSGA------PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALR  161 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC------CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            889999999999999999999883      44555 888889999999999999999999988655 4455555666776


Q ss_pred             hhcCHHHHHHHHHHccc-------------------------------------------------CChhh---H----H
Q 044786          164 KFRCLEDADFVFSQLKR-------------------------------------------------HNTVV---W----T  187 (340)
Q Consensus       164 ~~~~~~~a~~~~~~~~~-------------------------------------------------~~~~~---~----~  187 (340)
                      ..+..++|.+.++....                                                 .++..   +    .
T Consensus       162 ~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~  241 (765)
T PRK10049        162 NNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARI  241 (765)
T ss_pred             HCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHH
Confidence            66766666655553322                                                 01000   0    0


Q ss_pred             HHHHHHhccCchhHHHHHHHHHhhcccC-CChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc---cHHHHHHHHHH
Q 044786          188 AKIVNNCREGHFHQVFNDFKEMGRERIK-KNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES---DEYVQCGLVDM  263 (340)
Q Consensus       188 ~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~li~~  263 (340)
                      ..+.++...|++++|+..|+++.+.+.. |+. .-..+..++...|++++ |...++.+.......   .......+..+
T Consensus       242 d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~-A~~~l~~~l~~~p~~~~~~~~~~~~L~~a  319 (765)
T PRK10049        242 DRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEK-AQSILTELFYHPETIADLSDEELADLFYS  319 (765)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHH-HHHHHHHHhhcCCCCCCCChHHHHHHHHH
Confidence            0122344567778888888887765422 322 11223556777777766 666666555432111   12345556667


Q ss_pred             HhccCCHHHHHHHHHHhhcC-C-------------c---HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHH
Q 044786          264 YGKCRLLRDAERVFELIVDK-K-------------N---IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLIND  326 (340)
Q Consensus       264 ~~~~~~~~~A~~~~~~~~~~-~-------------~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~  326 (340)
                      +.+.|++++|.++++.+... |             +   ...+..+...+...|+.++|+++++++.... +-+...+..
T Consensus       320 ~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~  398 (765)
T PRK10049        320 LLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRID  398 (765)
T ss_pred             HHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            77788888888887777652 2             1   1234456667777888888888888876552 223344444


Q ss_pred             HHHHhhhcC
Q 044786          327 LRIACSSIS  335 (340)
Q Consensus       327 ll~a~~~~g  335 (340)
                      +...+...|
T Consensus       399 lA~l~~~~g  407 (765)
T PRK10049        399 YASVLQARG  407 (765)
T ss_pred             HHHHHHhcC
Confidence            444444444

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.64  E-value=1.3e-13  Score=117.21  Aligned_cols=295  Identities=10%  Similarity=0.031  Sum_probs=221.0

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH-----------------------------------HHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL-----------------------------------LFLNRLLL   54 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~-----------------------------------~~~~~li~   54 (340)
                      .+.|..+..++...|+.+.|.+.|....+.   .|+.                                   ..|+.|..
T Consensus       150 ida~inla~al~~~~~~~~a~~~~~~alql---nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~  226 (966)
T KOG4626|consen  150 IDAYINLAAALVTQGDLELAVQCFFEALQL---NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGC  226 (966)
T ss_pred             hHHHhhHHHHHHhcCCCcccHHHHHHHHhc---CcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCceeeeehhcch
Confidence            445556666666666666666666555533   3332                                   33444444


Q ss_pred             HHHhcCChhHHHHHHhhcCcCCc---ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc
Q 044786           55 MHVSCGQLDTARQLFDEMPLRDF---NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM  131 (340)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (340)
                      .+-..|+...|++.|++...-|+   ..|-.|...|...+.+++|+..|.+.....      +.....+..+...|...|
T Consensus       227 ~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr------pn~A~a~gNla~iYyeqG  300 (966)
T KOG4626|consen  227 VFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR------PNHAVAHGNLACIYYEQG  300 (966)
T ss_pred             HHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC------CcchhhccceEEEEeccc
Confidence            55555666666666666553332   256667777777777788887777777663      345567788888888889


Q ss_pred             chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHH
Q 044786          132 NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKE  208 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~  208 (340)
                      .++.|+..|++..+.... -...|+.|..++-..|++.+|+..|++...  + ...+.+.|...|...|.+++|..+|..
T Consensus       301 ~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~  379 (966)
T KOG4626|consen  301 LLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLK  379 (966)
T ss_pred             cHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            999999999988877533 467899999999999999999999999763  3 456789999999999999999999999


Q ss_pred             HhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCcc-HHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCc
Q 044786          209 MGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESD-EYVQCGLVDMYGKCRLLRDAERVFELIVD-KKN  285 (340)
Q Consensus       209 m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~  285 (340)
                      ..+  +.|. ....+.+...|-+.|++++ +...+++..+  ++|+ ...|+.+-..|-..|+++.|.+.+.+... +|.
T Consensus       380 al~--v~p~~aaa~nNLa~i~kqqgnl~~-Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt  454 (966)
T KOG4626|consen  380 ALE--VFPEFAAAHNNLASIYKQQGNLDD-AIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPT  454 (966)
T ss_pred             HHh--hChhhhhhhhhHHHHHHhcccHHH-HHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcH
Confidence            877  4565 4567888899999999987 6666665554  6775 46888999999999999999999998875 453


Q ss_pred             -HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch
Q 044786          286 -IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE  321 (340)
Q Consensus       286 -~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  321 (340)
                       ....+.|...|-..|+..+|+..|++...  ++||.
T Consensus       455 ~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  455 FAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             HHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence             45788899999999999999999999864  46664

>TIGR00540 hemY_coli hemY protein

Probab=99.62  E-value=6.1e-12  Score=108.86  Aligned_cols=279  Identities=10%  Similarity=-0.025  Sum_probs=201.0

Q ss_pred             hhccchhhHHHHHHHHHhhcCCCCCHHH-HHHHHHHHHhcCChhHHHHHHhhcCc--CCcc--cHHHHHHHHHcccChhH
Q 044786           21 TFQKDSAGAFELLNHIRKRVNIKPTLLF-LNRLLLMHVSCGQLDTARQLFDEMPL--RDFN--SWAVMIVGYVDVADYQE   95 (340)
Q Consensus        21 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~--~~~~li~~~~~~g~~~~   95 (340)
                      ...|+++.|.+.+....+.   .|+... +-....+..+.|+.+.|.+.+++..+  |+..  ..-.....+...|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~---~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH---AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHH
Confidence            3578999999999887654   455433 34445777888999999999998753  3432  23335777888999999


Q ss_pred             HHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHH---Hhh----cCH
Q 044786           96 CITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFY---GKF----RCL  168 (340)
Q Consensus        96 a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~----~~~  168 (340)
                      |.+.++.+.+..      +-+..++..+...+.+.|+++.+.+.+..+.+.+..+.......-..++   ...    ...
T Consensus       172 Al~~l~~l~~~~------P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~  245 (409)
T TIGR00540       172 ARHGVDKLLEMA------PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGI  245 (409)
T ss_pred             HHHHHHHHHHhC------CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence            999999999984      4466788999999999999999999999999997553332211111111   222    223


Q ss_pred             HHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHH-HHHHh--cccCCchhchHHHHH
Q 044786          169 EDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFS-SVLKA--CGGVDDDGNCGRQMH  242 (340)
Q Consensus       169 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~-~ll~~--~~~~~~~~~~~~~~~  242 (340)
                      +...+.++...+   .+...+..+...+...|+.++|.+++++..+.  .||..... .++..  ....++... +....
T Consensus       246 ~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~-~~~~~  322 (409)
T TIGR00540       246 DGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEK-LEKLI  322 (409)
T ss_pred             HHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHH-HHHHH
Confidence            455555665553   37788889999999999999999999999886  35543210 12222  233455544 44555


Q ss_pred             HHHHHhCCCccH--HHHHHHHHHHhccCCHHHHHHHHHH--hh-cCCcHHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          243 ANIVKIGLESDE--YVQCGLVDMYGKCRLLRDAERVFEL--IV-DKKNIASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       243 ~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~--~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                      +...+. .+-|+  ....++-..+.+.|++++|.+.|+.  .. ..|+...+..+...+.+.|+.++|.+++++-
T Consensus       323 e~~lk~-~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       323 EKQAKN-VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHh-CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444432 22244  6677889999999999999999993  33 3688888999999999999999999999974

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.62  E-value=5.6e-12  Score=108.56  Aligned_cols=277  Identities=9%  Similarity=-0.078  Sum_probs=206.0

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHHHHHHH-HHHHHhcCChhHHHHHHhhcCcCCcc--cHH--HHHHHHHcccChhHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLLFLNRL-LLMHVSCGQLDTARQLFDEMPLRDFN--SWA--VMIVGYVDVADYQECI   97 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~~~~~l-i~~~~~~~~~~~a~~~~~~~~~~~~~--~~~--~li~~~~~~g~~~~a~   97 (340)
                      .|+++.|.+.+......   .+++..+-.+ .....+.|+++.|.+.++++.+.+..  ...  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~---~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADH---AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhc---ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            58999999888775544   2233333333 34447889999999999998854333  222  2256788899999999


Q ss_pred             HHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCch-------hHHHHHHHHHHhhcCHHH
Q 044786           98 TLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNI-------SLTGSLINFYGKFRCLED  170 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~  170 (340)
                      +.+++..+..      +-+......+...+.+.|+++++.+++..+.+.+..++.       ..|..++.......+.+.
T Consensus       174 ~~l~~~~~~~------P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~  247 (398)
T PRK10747        174 HGVDKLLEVA------PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEG  247 (398)
T ss_pred             HHHHHHHhcC------CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHH
Confidence            9999999884      456678888999999999999999999999988765333       133344444445556677


Q ss_pred             HHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          171 ADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       171 a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                      ..++++.+.+   .+......+..++...|+.++|.+++++..+.  .|+...  .++.+....++.++ +....+...+
T Consensus       248 l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~-al~~~e~~lk  322 (398)
T PRK10747        248 LKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQ-LEKVLRQQIK  322 (398)
T ss_pred             HHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHH-HHHHHHHHHh
Confidence            7777777753   36778888999999999999999999998874  444422  23344445577766 4555554444


Q ss_pred             hCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          248 IGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       248 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      . .+-|+.....+-..+.+.+++++|.+.|+.... .|+...+..+...+.+.|+.++|.+++++-..
T Consensus       323 ~-~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        323 Q-HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             h-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3 244677788899999999999999999999887 58989989999999999999999999987543

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

Probab=99.61  E-value=7.2e-15  Score=120.84  Aligned_cols=250  Identities=12%  Similarity=0.112  Sum_probs=98.9

Q ss_pred             HHHHHHHhcCChhHHHHHHhhc-Cc----CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           51 RLLLMHVSCGQLDTARQLFDEM-PL----RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        51 ~li~~~~~~~~~~~a~~~~~~~-~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      .+-..+.+.|++++|+++++.. ..    .|...|..+.......++++.|.+.++++...+      +-+...+..++.
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~------~~~~~~~~~l~~   86 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD------KANPQDYERLIQ   86 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc------cccccccccccc
Confidence            4456666777777777777432 21    234445555555566677777777777777663      234445555555


Q ss_pred             HhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc-----cCChhhHHHHHHHHhccCchh
Q 044786          126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK-----RHNTVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~  200 (340)
                      . ...+++++|.+++....+..  ++...+...+..+...++++++.++++...     +.+...|..+...+.+.|+++
T Consensus        87 l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~  163 (280)
T PF13429_consen   87 L-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPD  163 (280)
T ss_dssp             ----------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHH
T ss_pred             c-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            5 57777777777776554443  345556667777778888888888877754     235566777888888889999


Q ss_pred             HHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHH
Q 044786          201 QVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFEL  279 (340)
Q Consensus       201 ~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  279 (340)
                      +|++.+++..+.  .|+ ......++..+...|+.++ +..++....+.. +.++..+..+..+|...|+.++|...|++
T Consensus       164 ~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~-~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  164 KALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDE-AREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHH-HHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHH-HHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccc
Confidence            999999888874  464 5567778888888888766 666666665553 55667788889999999999999999998


Q ss_pred             hhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          280 IVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       280 ~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      ... .| |+.....+..++...|+.++|.++.++..
T Consensus       240 ~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  240 ALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccccccccccccc
Confidence            876 34 77788888899999999999998877653

>PF13041 PPR_2: PPR repeat family

Probab=99.60  E-value=2.8e-15  Score=87.98  Aligned_cols=50  Identities=26%  Similarity=0.410  Sum_probs=48.7

Q ss_pred             CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhh
Q 044786          284 KNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSS  333 (340)
Q Consensus       284 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~  333 (340)
                      ||+.+||++|.+|++.|++++|.++|++|++.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999999999999999999999999999999985

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

Probab=99.60  E-value=6.5e-15  Score=121.11  Aligned_cols=259  Identities=12%  Similarity=0.093  Sum_probs=109.0

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIV   85 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~   85 (340)
                      ...+ .+...+.+.|++++|+++++..... .-+| +...|..+.......++.+.|.+.++++...   ++..+..++.
T Consensus         9 ~~~l-~~A~~~~~~~~~~~Al~~L~~~~~~-~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~   86 (280)
T PF13429_consen    9 EEAL-RLARLLYQRGDYEKALEVLKKAAQK-IAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQ   86 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccc-ccccccccccccccccccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3444 5577888999999999999766554 2234 4555556666777889999999999999854   3446777777


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC-CCCchhHHHHHHHHHHh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG-SSRNISLTGSLINFYGK  164 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~  164 (340)
                      . ...+++++|.+++.+..+.       .++...+..++..+.+.++++++..+++.+.... ...+...|..+...+.+
T Consensus        87 l-~~~~~~~~A~~~~~~~~~~-------~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~  158 (280)
T PF13429_consen   87 L-LQDGDPEEALKLAEKAYER-------DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQ  158 (280)
T ss_dssp             ---------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHH
T ss_pred             c-ccccccccccccccccccc-------ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHH
Confidence            7 7899999999999887766       4667778888899999999999999999987543 34677888899999999


Q ss_pred             hcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHH
Q 044786          165 FRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQM  241 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~  241 (340)
                      .|+.++|.+.+++..+  | |....+.++..+...|+.+++..+++...+.. +.|...+..+..++...|+.++ |..+
T Consensus       159 ~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~-Al~~  236 (280)
T PF13429_consen  159 LGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEE-ALEY  236 (280)
T ss_dssp             CCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHH-HHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccc-cccc
Confidence            9999999999999863  4 56778899999999999999999999987764 4455667888899999999977 7777


Q ss_pred             HHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          242 HANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      ++...+.. +.|+.+...+.+++...|+.++|.++.++..
T Consensus       237 ~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  237 LEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             cccccccc-ccccccccccccccccccccccccccccccc
Confidence            77766643 4588888999999999999999999987654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.58  E-value=1.4e-11  Score=115.69  Aligned_cols=292  Identities=10%  Similarity=-0.047  Sum_probs=216.3

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhh-cCCCCCHHHHHHHHHHHHhcCC---hhHHHHH------------Hh----
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKR-VNIKPTLLFLNRLLLMHVSCGQ---LDTARQL------------FD----   70 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~g~~~~~~~~~~li~~~~~~~~---~~~a~~~------------~~----   70 (340)
                      ...-.+--...+.|+.++|.++|+..... ..-.++....+.|+..|.+.+.   ...+..+            ..    
T Consensus       377 ~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  456 (987)
T PRK09782        377 TRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPG  456 (987)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhh
Confidence            33334444456789999999999998872 1233456666688888888876   3333333            11    


Q ss_pred             ---------hcCc---C--CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhH
Q 044786           71 ---------EMPL---R--DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELG  136 (340)
Q Consensus        71 ---------~~~~---~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  136 (340)
                               ....   +  +...|..+..++.. +++++|+..+.+....       .|+......+...+...|++++|
T Consensus       457 ~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~-------~Pd~~~~L~lA~al~~~Gr~eeA  528 (987)
T PRK09782        457 IADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR-------QPDAWQHRAVAYQAYQVEDYATA  528 (987)
T ss_pred             hhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh-------CCchHHHHHHHHHHHHCCCHHHH
Confidence                     1111   1  34456777777766 7888999999988877       57766555556666789999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHH---HHHHhccCchhHHHHHHHHHhhcc
Q 044786          137 KQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAK---IVNNCREGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~~~  213 (340)
                      ...++.+....  |+...+..+...+.+.|+.++|...++...+.+....+..   .......|++++|...+++..+. 
T Consensus       529 i~~~rka~~~~--p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l-  605 (987)
T PRK09782        529 LAAWQKISLHD--MSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI-  605 (987)
T ss_pred             HHHHHHHhccC--CCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-
Confidence            99999876553  3344566777888999999999999998876543333333   33334459999999999999874 


Q ss_pred             cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHH
Q 044786          214 IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNA  291 (340)
Q Consensus       214 ~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~  291 (340)
                       .|+...+..+...+.+.|+.++ +...++...... +-+...++.+...+...|++++|.+.+++... .| +...+..
T Consensus       606 -~P~~~a~~~LA~~l~~lG~~de-A~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~n  682 (987)
T PRK09782        606 -APSANAYVARATIYRQRHNVPA-AVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQ  682 (987)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence             5777788888899999999977 777777776653 34677888888899999999999999998876 34 7788999


Q ss_pred             HHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          292 MLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       292 li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      +..++...|++++|+..|++..+..
T Consensus       683 LA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        683 LAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999987653

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

Probab=99.58  E-value=1.6e-11  Score=96.64  Aligned_cols=295  Identities=12%  Similarity=0.080  Sum_probs=220.0

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH-------HHHH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW-------AVMI   84 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~li   84 (340)
                      .|-.=++.+. ..+.++|.++|-.|.+.  -+-+..+.-+|.+.|-+.|.+|.|+++.+.+.++...|+       --|.
T Consensus        38 ~Yv~GlNfLL-s~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~  114 (389)
T COG2956          38 DYVKGLNFLL-SNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLG  114 (389)
T ss_pred             HHHhHHHHHh-hcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            3444444443 45889999999999875  233455666888999999999999999999875433333       3466


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchh----HHHHHHH
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNIS----LTGSLIN  160 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~  160 (340)
                      .-|...|-+|.|+++|..+.+.+      ..-......|+..|-...+|++|..+-+++.+.+.++...    .|.-|..
T Consensus       115 ~Dym~aGl~DRAE~~f~~L~de~------efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq  188 (389)
T COG2956         115 RDYMAAGLLDRAEDIFNQLVDEG------EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQ  188 (389)
T ss_pred             HHHHHhhhhhHHHHHHHHHhcch------hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHH
Confidence            77889999999999999999864      5566678899999999999999999999999988765432    4566677


Q ss_pred             HHHhhcCHHHHHHHHHHcccCC---hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhch
Q 044786          161 FYGKFRCLEDADFVFSQLKRHN---TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNC  237 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~  237 (340)
                      .+....+++.|..++.+..+.|   +..--.+.+.+...|++.+|.+.++...+.+..--..+...+..+|.+.|+..+ 
T Consensus       189 ~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~-  267 (389)
T COG2956         189 QALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAE-  267 (389)
T ss_pred             HHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHH-
Confidence            7777889999999999887543   344455667888899999999999999987655556778899999999999977 


Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHH-HHHHhhcCCcHHHHHHHHHHHH---HcCchHHHHHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAER-VFELIVDKKNIASWNAMLVGYI---RNGLYVEATKFLYLMK  313 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~-~~~~~~~~~~~~~~~~li~~~~---~~~~~~~a~~~~~~m~  313 (340)
                      +..++..+.+....++.  -..+-+.-....-.+.|.. +.+.+..+|+...+..||..-.   ..|...+-+.++++|.
T Consensus       268 ~~~fL~~~~~~~~g~~~--~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mv  345 (389)
T COG2956         268 GLNFLRRAMETNTGADA--ELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMV  345 (389)
T ss_pred             HHHHHHHHHHccCCccH--HHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHH
Confidence            66666666654433333  3334444444444555555 4566666899999999998655   3455777788888887


Q ss_pred             HcCCc
Q 044786          314 ASGIQ  318 (340)
Q Consensus       314 ~~g~~  318 (340)
                      ...++
T Consensus       346 ge~l~  350 (389)
T COG2956         346 GEQLR  350 (389)
T ss_pred             HHHHh
Confidence            66443

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.57  E-value=5.1e-11  Score=96.55  Aligned_cols=284  Identities=12%  Similarity=-0.015  Sum_probs=226.8

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC--Ccc--cHHHHHHHHHcccChhHHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR--DFN--SWAVMIVGYVDVADYQECIT   98 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~--~~~~li~~~~~~g~~~~a~~   98 (340)
                      .|+|.+|.++...-.+. +-. ....|-.-..+--+.|+.+.+-+++.+..++  |..  .+-...+.....|+.+.|..
T Consensus        97 eG~~~qAEkl~~rnae~-~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          97 EGDFQQAEKLLRRNAEH-GEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhc-Ccc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            68999999999987766 433 3344555556677889999999999998865  333  45556677888999999999


Q ss_pred             HHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchh-------HHHHHHHHHHhhcCHHHH
Q 044786           99 LFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNIS-------LTGSLINFYGKFRCLEDA  171 (340)
Q Consensus        99 ~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a  171 (340)
                      -+++..+.+      +-+..+......+|.+.|++..+..+...+.+.|.-.+..       +|..+++-....+..+.-
T Consensus       175 ~v~~ll~~~------pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL  248 (400)
T COG3071         175 NVDQLLEMT------PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGL  248 (400)
T ss_pred             HHHHHHHhC------cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHH
Confidence            999999885      5677889999999999999999999999999999765543       567777766666666776


Q ss_pred             HHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHh
Q 044786          172 DFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       172 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                      ...++..+.   .++..-.+++.-+.+.|+.++|.++.++-.+++..|..    ..+-.+.+.++.......+-......
T Consensus       249 ~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h  324 (400)
T COG3071         249 KTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQH  324 (400)
T ss_pred             HHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhC
Confidence            777887763   36777788899999999999999999999998777762    22335667777766566666666666


Q ss_pred             CCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccc
Q 044786          249 GLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ  320 (340)
Q Consensus       249 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~  320 (340)
                      +-.|  ..+.+|-..|.+.+.+.+|.+.|+...+ +|+..+|+-+..+|.+.|+..+|.+++++-...-.+|+
T Consensus       325 ~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         325 PEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             CCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            5555  7788899999999999999999998776 58999999999999999999999999998765544444

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.53  E-value=6.5e-11  Score=102.00  Aligned_cols=264  Identities=9%  Similarity=0.023  Sum_probs=200.0

Q ss_pred             cCChhHHHHHHhhcCcC--CcccHHH-HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH--HHHHHhhhccch
Q 044786           59 CGQLDTARQLFDEMPLR--DFNSWAV-MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV--CVLKACVCTMNM  133 (340)
Q Consensus        59 ~~~~~~a~~~~~~~~~~--~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~  133 (340)
                      .|+++.|++.+....+.  ++..+.. ...+..+.|+++.|.+.+.++.+.       .|+.....  .....+...|++
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~-------~~~~~~~~~l~~a~l~l~~g~~  169 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL-------ADNDQLPVEITRVRIQLARNEN  169 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-------CCcchHHHHHHHHHHHHHCCCH
Confidence            59999999998876543  2223322 344457899999999999999887       56665433  335788889999


Q ss_pred             hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCCh-----------hhHHHHHHHHhccCchhHH
Q 044786          134 ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNT-----------VVWTAKIVNNCREGHFHQV  202 (340)
Q Consensus       134 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~~li~~~~~~~~~~~a  202 (340)
                      +.|.+.++.+.+..+. ++.....+...|.+.|++++|.+++..+.+...           .+|..++.......+.+..
T Consensus       170 ~~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l  248 (398)
T PRK10747        170 HAARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGL  248 (398)
T ss_pred             HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999999999988744 677888999999999999999999999885422           1334444444455566777


Q ss_pred             HHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          203 FNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       203 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      .++++.+.+. .+.+......+..++...|+.++ +..+.+...+.  +|+...  .++.+....++.+++.+..+...+
T Consensus       249 ~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~-A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk  322 (398)
T PRK10747        249 KRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDT-AQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIK  322 (398)
T ss_pred             HHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHH-HHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHh
Confidence            7777777553 24466677888899999999977 66666666553  455533  234455566999999999998876


Q ss_pred             C-C-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCccc
Q 044786          283 K-K-NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASK  338 (340)
Q Consensus       283 ~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~~  338 (340)
                      + | |...+..+...+.+.+++++|.+.|+...+.  .|+..++..+-..+.+.|..+
T Consensus       323 ~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        323 QHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHH
Confidence            3 4 6667888999999999999999999999865  699999989988888888653

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.52  E-value=2.1e-12  Score=113.98  Aligned_cols=267  Identities=12%  Similarity=0.026  Sum_probs=182.9

Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC----CcccHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           31 ELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR----DFNSWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        31 ~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      .++..+... |+.|+..||..+|.-||..|+.+.|- +|.-|.-+    +...|+.++.+...+++.+.+.         
T Consensus        11 nfla~~e~~-gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEIS-GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHh-cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            456667777 88888888888888888888888888 88777744    3345777887777777766553         


Q ss_pred             hcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc-cC-Chh
Q 044786          107 KKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK-RH-NTV  184 (340)
Q Consensus       107 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~-~~~  184 (340)
                             .|...||..|+.+|...||+..-..    ..+        -...+...+...|.-.....++..+. .| ...
T Consensus        80 -------ep~aDtyt~Ll~ayr~hGDli~fe~----veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lp  140 (1088)
T KOG4318|consen   80 -------EPLADTYTNLLKAYRIHGDLILFEV----VEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLP  140 (1088)
T ss_pred             -------CCchhHHHHHHHHHHhccchHHHHH----HHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccch
Confidence                   4777788888888888888765222    222        12233344455555444455554432 11 111


Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHHhhcc-cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEMGRER-IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDM  263 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~  263 (340)
                      .-.+.+.-....|.++.+++++..+.... ..|.    ..++.-+......   .+.+..+.....-.|++.+|.+++++
T Consensus       141 da~n~illlv~eglwaqllkll~~~Pvsa~~~p~----~vfLrqnv~~ntp---vekLl~~cksl~e~~~s~~l~a~l~~  213 (1088)
T KOG4318|consen  141 DAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPF----QVFLRQNVVDNTP---VEKLLNMCKSLVEAPTSETLHAVLKR  213 (1088)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhCCcccccchH----HHHHHHhccCCch---HHHHHHHHHHhhcCCChHHHHHHHHH
Confidence            22334555566777778877777664321 1122    2236666666554   55666665544336999999999999


Q ss_pred             HhccCCHHHHHHHHHHhhcCC---cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCcc
Q 044786          264 YGKCRLLRDAERVFELIVDKK---NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISAS  337 (340)
Q Consensus       264 ~~~~~~~~~A~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~  337 (340)
                      -...|+++.|..++.+|+.+.   +..-|..|+.+   .++...+..+++-|.+.|+.|+..|+..-+-.|.+.|..
T Consensus       214 alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t  287 (1088)
T KOG4318|consen  214 ALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQT  287 (1088)
T ss_pred             HHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhh
Confidence            999999999999999998752   44445556555   788888999999999999999999999999888886654

>PF13041 PPR_2: PPR repeat family

Probab=99.51  E-value=4.1e-14  Score=82.99  Aligned_cols=50  Identities=28%  Similarity=0.567  Sum_probs=47.2

Q ss_pred             CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhccc
Q 044786          181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG  230 (340)
Q Consensus       181 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  230 (340)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            68899999999999999999999999999999999999999999999875

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.50  E-value=4.6e-10  Score=103.55  Aligned_cols=308  Identities=10%  Similarity=0.007  Sum_probs=207.7

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHc--ccChh
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVD--VADYQ   94 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~--~g~~~   94 (340)
                      ...+...|++++|.++|+.+.+.  -+-+...+..++..+...++.++|++.++.+.+.+......+..++..  .++..
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHH
Confidence            45677789999999999999877  344567777888889999999999999999986655543334445544  45665


Q ss_pred             HHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHH----------------------------------
Q 044786           95 ECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVH----------------------------------  140 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~----------------------------------  140 (340)
                      +|++.++++.+..      +-+...+..+..+..+.|-...|.++.                                  
T Consensus       187 ~AL~~~ekll~~~------P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~  260 (822)
T PRK14574        187 DALQASSEAVRLA------PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSE  260 (822)
T ss_pred             HHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccc
Confidence            6999999999884      334445555555555555433333222                                  


Q ss_pred             --------------HHHHH-cCCCCch-hHH----HHHHHHHHhhcCHHHHHHHHHHcccCC----hhhHHHHHHHHhcc
Q 044786          141 --------------GLLFK-LGSSRNI-SLT----GSLINFYGKFRCLEDADFVFSQLKRHN----TVVWTAKIVNNCRE  196 (340)
Q Consensus       141 --------------~~~~~-~~~~~~~-~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~li~~~~~~  196 (340)
                                    +.+.. .+..|.. ..|    .--+-++...+++.++.+.|+.+....    ..+-..+..+|...
T Consensus       261 ~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~  340 (822)
T PRK14574        261 TERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDR  340 (822)
T ss_pred             hhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhc
Confidence                          22221 1111211 111    122445667788888888888887442    23456778899999


Q ss_pred             CchhHHHHHHHHHhhcc-----cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCC-----------CccH---HHH
Q 044786          197 GHFHQVFNDFKEMGRER-----IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGL-----------ESDE---YVQ  257 (340)
Q Consensus       197 ~~~~~a~~~~~~m~~~~-----~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~---~~~  257 (340)
                      +++++|..+|+++....     ..++......|.-++...+++++ |..+.+.+.+...           .||+   ..+
T Consensus       341 ~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~-A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~  419 (822)
T PRK14574        341 RLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDK-AYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQ  419 (822)
T ss_pred             CCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHH-HHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHH
Confidence            99999999999986642     12233335778889999999977 8888887776311           1211   233


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch-hHHHHHHHHhhhc
Q 044786          258 CGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE-SLINDLRIACSSI  334 (340)
Q Consensus       258 ~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~t~~~ll~a~~~~  334 (340)
                      ..++..+...|++.+|++.++++..  +.|......+...+...|++++|++.++.....  .|+. .+......+.-..
T Consensus       420 ~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l  497 (822)
T PRK14574        420 TLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSLILERAQAETAMAL  497 (822)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhh
Confidence            4567778889999999999999876  358888889999999999999999999776544  4443 3444444444444


Q ss_pred             C
Q 044786          335 S  335 (340)
Q Consensus       335 g  335 (340)
                      |
T Consensus       498 ~  498 (822)
T PRK14574        498 Q  498 (822)
T ss_pred             h
Confidence            3

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.50  E-value=5.9e-11  Score=111.52  Aligned_cols=255  Identities=12%  Similarity=-0.026  Sum_probs=183.9

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHH--HcccChhHHHHHHHHHHHhhcCCccccchHHHHHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGY--VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      +...|..+..++.. ++.++|...+.+.....+..++.+..++  ...|++++|...|+++...       +|+...+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~-------~p~~~a~~~  547 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH-------DMSNEDLLA  547 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-------CCCcHHHHH
Confidence            56677777777766 7888899877776643333445444444  5789999999999987655       444555667


Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--CChhhHHHHHHHHhccCchh
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--HNTVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~  200 (340)
                      +..++.+.|++++|.+.++...+.... +...+..+.....+.|++++|...+++..+  |+...|..+...+.+.|+++
T Consensus       548 la~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~d  626 (987)
T PRK09782        548 AANTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVP  626 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHH
Confidence            778888899999999999988877532 333333344444556999999999998763  56677888888999999999


Q ss_pred             HHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHH
Q 044786          201 QVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFEL  279 (340)
Q Consensus       201 ~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  279 (340)
                      +|+..+++....  .|+ ...+..+-.++...|+.++ +...++...+.. +-+...+..+..++...|++++|+..+++
T Consensus       627 eA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~ee-Ai~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~  702 (987)
T PRK09782        627 AAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQ-SREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARL  702 (987)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999998875  465 4455666678888899866 666777666542 34677888899999999999999999998


Q ss_pred             hhc-CCc-HHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          280 IVD-KKN-IASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       280 ~~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                      ... .|+ ..+.-.......+..+++.|.+-+++-
T Consensus       703 Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~  737 (987)
T PRK09782        703 VIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRR  737 (987)
T ss_pred             HHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            875 343 344444555556666677777666554

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.49  E-value=1.2e-11  Score=101.75  Aligned_cols=271  Identities=11%  Similarity=0.069  Sum_probs=206.3

Q ss_pred             HHhcCChhHHHHHHhhcCcCCcccHHH-----HHHHHHc-ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh
Q 044786           56 HVSCGQLDTARQLFDEMPLRDFNSWAV-----MIVGYVD-VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC  129 (340)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-----li~~~~~-~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (340)
                      +.+.|+++.|.+++.-+.++|..+-.+     .+--|.. ..++..|.+.-+..+..+      +.+......-.+....
T Consensus       429 ~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d------ryn~~a~~nkgn~~f~  502 (840)
T KOG2003|consen  429 LLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID------RYNAAALTNKGNIAFA  502 (840)
T ss_pred             HHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc------ccCHHHhhcCCceeee
Confidence            567889999999988887665543222     2222222 346777877777776654      5566666666666777


Q ss_pred             ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc---cCChhhHHHHHHHHhccCchhHHHHHH
Q 044786          130 TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK---RHNTVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       130 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                      .|++++|.+.|++.+...-.-....||.= -.+-+.|++++|++.|-++.   ..++.+...+...|-...++.+|++++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~  581 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELL  581 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHH
Confidence            89999999999999887655455555543 34677899999999987764   457777788888899999999999998


Q ss_pred             HHHhhcccCC-ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC
Q 044786          207 KEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK  284 (340)
Q Consensus       207 ~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~  284 (340)
                      -+...  +.| |+...+.+-..|-+.|+-.+ +.+.+-.--+ -++-+..+...|..-|....-+++|..+|++..- +|
T Consensus       582 ~q~~s--lip~dp~ilskl~dlydqegdksq-afq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp  657 (840)
T KOG2003|consen  582 MQANS--LIPNDPAILSKLADLYDQEGDKSQ-AFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQP  657 (840)
T ss_pred             HHhcc--cCCCCHHHHHHHHHHhhcccchhh-hhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCc
Confidence            66654  455 56778888889999998755 4444332222 2566889999999999999999999999998754 79


Q ss_pred             cHHHHHHHHHHHH-HcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCccc
Q 044786          285 NIASWNAMLVGYI-RNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASK  338 (340)
Q Consensus       285 ~~~~~~~li~~~~-~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~~  338 (340)
                      +..-|..||.+|. +.|++.+|+++|++.. +.++-|......|++-|..+|-.+
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~h-rkfpedldclkflvri~~dlgl~d  711 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIH-RKFPEDLDCLKFLVRIAGDLGLKD  711 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHH-HhCccchHHHHHHHHHhccccchh
Confidence            9999999998765 7899999999999985 458889999999999999988654

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.49  E-value=1.9e-11  Score=105.03  Aligned_cols=282  Identities=9%  Similarity=-0.021  Sum_probs=212.2

Q ss_pred             cchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC------CcccHHHHHHHHHcccChhHHH
Q 044786           24 KDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR------DFNSWAVMIVGYVDVADYQECI   97 (340)
Q Consensus        24 ~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~   97 (340)
                      -+.++|...|+.+..+  +.-+..+...+..+|...++.++|+++|+.+.+.      +.++|.+.+.-+-+   .-+--
T Consensus       333 y~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~---~v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD---EVALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh---hHHHH
Confidence            3678889999885544  4445567778888999999999999999998732      66678777764422   12212


Q ss_pred             HHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHH
Q 044786           98 TLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQ  177 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (340)
                      -+-+.+....      +-...+|.++.+.|.-.++.+.|++.|++..+.+.. ...+|+.+..-+.....+|+|...|+.
T Consensus       408 ~Laq~Li~~~------~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~  480 (638)
T KOG1126|consen  408 YLAQDLIDTD------PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRK  480 (638)
T ss_pred             HHHHHHHhhC------CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHh
Confidence            2223334332      566789999999999999999999999999887633 678899999999999999999999999


Q ss_pred             cccCChhhHHH---HHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCcc
Q 044786          178 LKRHNTVVWTA---KIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESD  253 (340)
Q Consensus       178 ~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (340)
                      ....|+..||+   +...|.+.++++.|.-.|++..+  +.|. .+....+...+.+.|+.++ +..+++.......+ |
T Consensus       481 Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~-AL~~~~~A~~ld~k-n  556 (638)
T KOG1126|consen  481 ALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDK-ALQLYEKAIHLDPK-N  556 (638)
T ss_pred             hhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhH-HHHHHHHHHhcCCC-C
Confidence            98888777666   56788899999999999999887  4564 4455666666777888766 77777776654322 3


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch
Q 044786          254 EYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE  321 (340)
Q Consensus       254 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  321 (340)
                      +..--.-...+...++.++|.+.+++++. -| +...+-.+...|.+.|+.+.|+.-|--+.+..-++..
T Consensus       557 ~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  557 PLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             chhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            33333455667778999999999999987 24 6667888888999999999999888777666544444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.48  E-value=2.2e-10  Score=105.62  Aligned_cols=283  Identities=11%  Similarity=0.012  Sum_probs=201.0

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCH--HHHHHHHHHHHhcCChhHHHHHHhhcCcCCccc-HHHH--HHHHHcccChh
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTL--LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNS-WAVM--IVGYVDVADYQ   94 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~l--i~~~~~~g~~~   94 (340)
                      ..+.|+++.|++.|++..+.   .|+.  ..+ .++..+...|+.++|+..+++...|+... +..+  ...+...|+++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~---~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKA---GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhh---CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            35889999999999999866   4553  244 88889999999999999999999764444 3334  45778889999


Q ss_pred             HHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHH
Q 044786           95 ECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFV  174 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (340)
                      +|+++|+++.+..      +-+...+..++..+...++.++|++.++.+.+..  |+...+..++..+...++..+|.+.
T Consensus       120 ~Aiely~kaL~~d------P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        120 QALALWQSSLKKD------PTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             HHHHHHHHHHhhC------CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHH
Confidence            9999999999984      3445677788889999999999999999988774  4455554554455445666669999


Q ss_pred             HHHcccC---ChhhHHHHHHHHhccCchhHHHHH----------------------------------------------
Q 044786          175 FSQLKRH---NTVVWTAKIVNNCREGHFHQVFND----------------------------------------------  205 (340)
Q Consensus       175 ~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~----------------------------------------------  205 (340)
                      ++++.+.   +...+..+..+..+.|-...|.++                                              
T Consensus       192 ~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~al  271 (822)
T PRK14574        192 SSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKAL  271 (822)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            9988643   333344444444444433333332                                              


Q ss_pred             --HHHHhhc-ccCCCh-hh----HHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHH
Q 044786          206 --FKEMGRE-RIKKNS-YT----FSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVF  277 (340)
Q Consensus       206 --~~~m~~~-~~~p~~-~t----~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  277 (340)
                        ++.+... +-.|.. .-    ..--+-++...++..+ +..-++.+...+.+....+-..+.++|...+++++|..++
T Consensus       272 a~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~-vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~  350 (822)
T PRK14574        272 ADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTAD-LIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPIL  350 (822)
T ss_pred             HHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHH-HHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence              3332221 111221 11    1223445566677755 7777788887777666677888999999999999999999


Q ss_pred             HHhhcC--------CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          278 ELIVDK--------KNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       278 ~~~~~~--------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +.+...        ++......|.-+|...+++++|..+++++.+.
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~  396 (822)
T PRK14574        351 SSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQ  396 (822)
T ss_pred             HHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            998542        13334577899999999999999999999873

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.48  E-value=6.7e-12  Score=110.85  Aligned_cols=247  Identities=10%  Similarity=0.002  Sum_probs=171.7

Q ss_pred             CCCCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            1 MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         1 M~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      |+..|+.|+..||..+|..||..|+.+.|- +|..|+-. .++.+...++.++.++.+.++.+.+.       +|...+|
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~k-sLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDty   86 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIK-SLPVREGVFRGLVASHKEANDAENPK-------EPLADTY   86 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcc-cccccchhHHHHHhcccccccccCCC-------CCchhHH
Confidence            456799999999999999999999999999 99999988 88889999999999999999988776       7888899


Q ss_pred             HHHHHHHHcccChhHHHHHHHH-HHH-------hhcCC------------ccccchHHHHHHHHHHhhhccchhhHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAE-MMK-------RKKGH------------MLLVFPAWIIVCVLKACVCTMNMELGKQVH  140 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~-m~~-------~~~~~------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  140 (340)
                      ..|..+|...||... .+..++ +..       .|.|.            +.+-||..   .++.-....|-++.+++++
T Consensus        87 t~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll  162 (1088)
T KOG4318|consen   87 TNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLL  162 (1088)
T ss_pred             HHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHH
Confidence            999999999998765 222222 222       11111            00111111   1111222223333333333


Q ss_pred             HHHHHcCCCCchhHHHHH---HHHHHhh-cCHHHHHHHHHHccc-CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccC
Q 044786          141 GLLFKLGSSRNISLTGSL---INFYGKF-RCLEDADFVFSQLKR-HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIK  215 (340)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l---~~~~~~~-~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  215 (340)
                      ..+      |...-++..   ++-.... ..+++-..+.+...+ ++..+|.+++.+-...|+.+.|..++.+|.+.|++
T Consensus       163 ~~~------Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp  236 (1088)
T KOG4318|consen  163 AKV------PVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP  236 (1088)
T ss_pred             hhC------CcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC
Confidence            222      222111111   2222221 224444444444444 78889999999999999999999999999999998


Q ss_pred             CChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCH
Q 044786          216 KNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLL  270 (340)
Q Consensus       216 p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  270 (340)
                      .+..-|..++-+   .++. ..+..+.+.|...|+.|+..|+...+..+.+.|..
T Consensus       237 ir~HyFwpLl~g---~~~~-q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t  287 (1088)
T KOG4318|consen  237 IRAHYFWPLLLG---INAA-QVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQT  287 (1088)
T ss_pred             cccccchhhhhc---Cccc-hHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhh
Confidence            887777777766   4554 44788889999999999999998888877775553

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=4.2e-10  Score=92.99  Aligned_cols=304  Identities=12%  Similarity=0.098  Sum_probs=225.4

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCc------ccHHHHHHHHHc
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDF------NSWAVMIVGYVD   89 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~li~~~~~   89 (340)
                      +..++......+++.+=.+..... |++-+...-+....+.-...++|+|+.+|+++.+.|+      .+|..++-.--.
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~-gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~  311 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSV-GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhc-cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhh
Confidence            445555666888888888888888 8887776666666677778899999999999986544      456655433322


Q ss_pred             ccChhHHHHHHH-HHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCH
Q 044786           90 VADYQECITLFA-EMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        90 ~g~~~~a~~~~~-~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      ..    .+..+. ...+.+      +....|+.++.+-|.-.++.+.|...|+..++.+.. ....|+.+.+-|....+.
T Consensus       312 ~s----kLs~LA~~v~~id------KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt  380 (559)
T KOG1155|consen  312 KS----KLSYLAQNVSNID------KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNT  380 (559)
T ss_pred             hH----HHHHHHHHHHHhc------cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhccc
Confidence            11    112222 222222      556678888888899999999999999999988755 566888899999999999


Q ss_pred             HHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhchHHHHHHH
Q 044786          169 EDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHAN  244 (340)
Q Consensus       169 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~  244 (340)
                      ..|.+.|+...+   .|-..|-.+.++|...+.+.=|+-+|++..+  ++| |...|.++-..|.+.++.++ |...+..
T Consensus       381 ~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~e-AiKCykr  457 (559)
T KOG1155|consen  381 HAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEE-AIKCYKR  457 (559)
T ss_pred             HHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHH-HHHHHHH
Confidence            999999998764   4777888899999999999999999999887  456 57788999999999999988 7777776


Q ss_pred             HHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--------CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          245 IVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--------KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       245 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ....| ..+...+..|.+.|-+.++..+|-..|+.-..        .| .+..---|..-+.+.+++++|........ .
T Consensus       458 ai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~-~  535 (559)
T KOG1155|consen  458 AILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL-K  535 (559)
T ss_pred             HHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh-c
Confidence            66655 34668888999999999999999888876654        12 12222225566778899999877665553 3


Q ss_pred             CCccchhHHHHHHHHhhhcCcc
Q 044786          316 GIQIQESLINDLRIACSSISAS  337 (340)
Q Consensus       316 g~~~~~~t~~~ll~a~~~~g~~  337 (340)
                      | .+...--+.|++.|.+.-.+
T Consensus       536 ~-~~e~eeak~LlReir~~~~p  556 (559)
T KOG1155|consen  536 G-ETECEEAKALLREIRKIQAP  556 (559)
T ss_pred             C-CchHHHHHHHHHHHHHhcCC
Confidence            4 67777778888887765543

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.46  E-value=3.9e-10  Score=100.21  Aligned_cols=296  Identities=11%  Similarity=0.053  Sum_probs=228.4

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhc---CcCCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEM---PLRDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~   86 (340)
                      ....-...+.....|+.++|.+++..+.+.  -+.+...|..|...|-..|+.+++...+-..   .+.|...|-.+...
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladl  216 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADL  216 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            333444444555569999999999999987  5667889999999999999999998876543   35577789999999


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHH----HHHHHHH
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLT----GSLINFY  162 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~  162 (340)
                      ....|+++.|.-+|.+.++..      +++...+-.=...|-+.|+...|...|.++.+...+.|..-.    -..+..+
T Consensus       217 s~~~~~i~qA~~cy~rAI~~~------p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~  290 (895)
T KOG2076|consen  217 SEQLGNINQARYCYSRAIQAN------PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYF  290 (895)
T ss_pred             HHhcccHHHHHHHHHHHHhcC------CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHH
Confidence            999999999999999999984      455556666677888999999999999999988654343333    2346667


Q ss_pred             HhhcCHHHHHHHHHHcccC-----ChhhHHHHHHHHhccCchhHHHHHHHHHhhcc------------------------
Q 044786          163 GKFRCLEDADFVFSQLKRH-----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRER------------------------  213 (340)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------------------------  213 (340)
                      ...++.+.|.+.++.....     +...++.++..|.+...++.|......+....                        
T Consensus       291 ~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~  370 (895)
T KOG2076|consen  291 ITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEV  370 (895)
T ss_pred             HHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccC
Confidence            7778888888888876542     45568899999999999999999988887621                        


Q ss_pred             ---cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc--cHHHHHHHHHHHhccCCHHHHHHHHHHhhcCC---c
Q 044786          214 ---IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES--DEYVQCGLVDMYGKCRLLRDAERVFELIVDKK---N  285 (340)
Q Consensus       214 ---~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~---~  285 (340)
                         +.++... ..+.-++.+.... +....+...+....+.|  ++..|.-+.++|...|++.+|..+|..+...|   +
T Consensus       371 ~~~~s~~l~v-~rl~icL~~L~~~-e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~  448 (895)
T KOG2076|consen  371 GKELSYDLRV-IRLMICLVHLKER-ELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQN  448 (895)
T ss_pred             CCCCCccchh-HhHhhhhhccccc-chHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccc
Confidence               1122222 1222233444443 44777777777777554  67889999999999999999999999998753   6


Q ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          286 IASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       286 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ...|-.+..+|...|.+++|++.|+.....
T Consensus       449 ~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~  478 (895)
T KOG2076|consen  449 AFVWYKLARCYMELGEYEEAIEFYEKVLIL  478 (895)
T ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            778999999999999999999999998755

>TIGR00540 hemY_coli hemY protein

Probab=99.41  E-value=3.9e-10  Score=97.74  Aligned_cols=263  Identities=10%  Similarity=-0.024  Sum_probs=188.7

Q ss_pred             CCCcch-hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH--HHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccH
Q 044786            7 PITTDM-YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL--LFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSW   80 (340)
Q Consensus         7 ~~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~   80 (340)
                      .|++.. |-....+..+.|+.+.|.+.+....+.   .|+.  ...-.....+...|+++.|.+.++.+.+.   +..++
T Consensus       114 ~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~---~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l  190 (409)
T TIGR00540       114 AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL---AGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVL  190 (409)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            344333 334456677889999999999998765   3444  23344578888999999999999998843   55578


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH-HHHH---HhhhccchhhHHHHHHHHHHcCCC---Cchh
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV-CVLK---ACVCTMNMELGKQVHGLLFKLGSS---RNIS  153 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~-~ll~---~~~~~~~~~~a~~~~~~~~~~~~~---~~~~  153 (340)
                      ..+...+...|++++|.+.+..+.+.+  +    ++...+. .-..   .....+..+.+.+.+..+.+....   .+..
T Consensus       191 ~ll~~~~~~~~d~~~a~~~l~~l~k~~--~----~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~  264 (409)
T TIGR00540       191 KLAEEAYIRSGAWQALDDIIDNMAKAG--L----FDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIA  264 (409)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHcC--C----CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHH
Confidence            889999999999999999999999884  2    2222221 1111   112223333334455555444321   3778


Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHcccC--Chhh---HHHHHHHHhccCchhHHHHHHHHHhhcccCCChh---hHHHHH
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKRH--NTVV---WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSY---TFSSVL  225 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---t~~~ll  225 (340)
                      .+..+...+...|+.++|.+++++..+.  +...   ...........++.+.+.+.+++..+.  .|+..   ...++-
T Consensus       265 l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg  342 (409)
T TIGR00540       265 LKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALG  342 (409)
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHH
Confidence            8889999999999999999999998753  3321   122222334457888899999887764  46544   345777


Q ss_pred             HhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          226 KACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      ..+.+.|++++ +...++........|+...+..+...+.+.|+.++|.+++++..
T Consensus       343 ~l~~~~~~~~~-A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       343 QLLMKHGEFIE-AADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHcccHHH-HHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88899999977 88888865555568999889999999999999999999999764

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.

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

Probab=99.41  E-value=4.9e-10  Score=88.50  Aligned_cols=266  Identities=11%  Similarity=0.008  Sum_probs=197.2

Q ss_pred             cCChhHHHHHHhhcCcCCcccHH---HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhh
Q 044786           59 CGQLDTARQLFDEMPLRDFNSWA---VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMEL  135 (340)
Q Consensus        59 ~~~~~~a~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  135 (340)
                      ..+.++|.++|-+|.+-|..+|.   +|.+.|-+.|..+.|+++-..+.+.. +. .+.--......|.+-|...|-+|.
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~sp-dl-T~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESP-DL-TFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCC-CC-chHHHHHHHHHHHHHHHHhhhhhH
Confidence            47899999999999987777665   47788889999999999999988763 21 011122356677788889999999


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHH--------HHHHHhccCchhHHHHHHH
Q 044786          136 GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTA--------KIVNNCREGHFHQVFNDFK  207 (340)
Q Consensus       136 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------li~~~~~~~~~~~a~~~~~  207 (340)
                      |+.+|..+.+.|.- -......|+..|-...+|++|.++-+++.+.+...|+.        +...+....++++|..+++
T Consensus       126 AE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            99999999886532 34466788999999999999999998887665544444        4444445688999999999


Q ss_pred             HHhhcccCCChhhHH-HHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCc
Q 044786          208 EMGRERIKKNSYTFS-SVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKN  285 (340)
Q Consensus       208 ~m~~~~~~p~~~t~~-~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~  285 (340)
                      +..+..  |+.+--+ .+-......|++.. +...++.+.+.+..--+.+...|..+|.+.|+.++...++.++.. .+.
T Consensus       205 kAlqa~--~~cvRAsi~lG~v~~~~g~y~~-AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g  281 (389)
T COG2956         205 KALQAD--KKCVRASIILGRVELAKGDYQK-AVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTG  281 (389)
T ss_pred             HHHhhC--ccceehhhhhhHHHHhccchHH-HHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCC
Confidence            987753  4433333 34455778899855 778888888887777788889999999999999999999988876 344


Q ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhh
Q 044786          286 IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACS  332 (340)
Q Consensus       286 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~  332 (340)
                      ...-..+-.--....-.+.|...+.+-..+  +|+..-|..++..=.
T Consensus       282 ~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l  326 (389)
T COG2956         282 ADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL  326 (389)
T ss_pred             ccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh
Confidence            444444444444445566676666665544  788888888887543

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.40  E-value=7.8e-10  Score=91.43  Aligned_cols=288  Identities=12%  Similarity=0.062  Sum_probs=213.2

Q ss_pred             CCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCC-CCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHH
Q 044786            4 LCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIK-PTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAV   82 (340)
Q Consensus         4 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   82 (340)
                      .|++.+...-+....+.-...|+++|+.+|+.+.+..... .|..+|+.++.+--.+.++.---+..-.+.+=-+.|+.+
T Consensus       256 ~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCi  335 (559)
T KOG1155|consen  256 VGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCI  335 (559)
T ss_pred             ccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceee
Confidence            3566555555555555667789999999999999873222 267888888866555444433222222333334668888


Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFY  162 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  162 (340)
                      +.+-|+-.++.++|...|++.++.+      +.....|+.+..-|....+...|.+-|+..++..+. |-..|-.|.++|
T Consensus       336 IaNYYSlr~eHEKAv~YFkRALkLN------p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaY  408 (559)
T KOG1155|consen  336 IANYYSLRSEHEKAVMYFKRALKLN------PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAY  408 (559)
T ss_pred             ehhHHHHHHhHHHHHHHHHHHHhcC------cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHH
Confidence            8899999999999999999999885      566778999999999999999999999999988744 888999999999


Q ss_pred             HhhcCHHHHHHHHHHcc---cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHH
Q 044786          163 GKFRCLEDADFVFSQLK---RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGR  239 (340)
Q Consensus       163 ~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~  239 (340)
                      .-.+...-|+-.|++..   ..|...|.+|.++|.+.++.++|++.|++....|- .+...+..+.+.|-+.++..+ |.
T Consensus       409 eim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~e-Aa  486 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNE-AA  486 (559)
T ss_pred             HHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHH-HH
Confidence            99999999999999875   33889999999999999999999999999988652 355778899999999999977 44


Q ss_pred             HHHHHHHH----hCC-Cc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          240 QMHANIVK----IGL-ES-DEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       240 ~~~~~~~~----~~~-~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      ..+....+    .|. .| .......|..-+.+.+++++|.........             +  ....++|..++++..
T Consensus       487 ~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~-------------~--~~e~eeak~LlReir  551 (559)
T KOG1155|consen  487 QYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK-------------G--ETECEEAKALLREIR  551 (559)
T ss_pred             HHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc-------------C--CchHHHHHHHHHHHH
Confidence            44443332    232 23 333444466667777888877765554432             1  334677777777765


Q ss_pred             Hc
Q 044786          314 AS  315 (340)
Q Consensus       314 ~~  315 (340)
                      ..
T Consensus       552 ~~  553 (559)
T KOG1155|consen  552 KI  553 (559)
T ss_pred             Hh
Confidence            43

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.37  E-value=2.9e-10  Score=90.79  Aligned_cols=194  Identities=8%  Similarity=0.005  Sum_probs=121.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      ....+..+...+...|++++|.+.+++..+.   +...+..+...+...|++++|.+.+++..+..      +.+...+.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~------~~~~~~~~  103 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN------PNNGDVLN  103 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC------CCCHHHHH
Confidence            3455666667777777777777777765522   33455666667777777777777777776663      33445666


Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHcCCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccC
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKLGSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREG  197 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~  197 (340)
                      .+...+...|++++|.+.++...+....+ ....+..+...+...|++++|...+++..+.   +...+..+...+...|
T Consensus       104 ~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~  183 (234)
T TIGR02521       104 NYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRG  183 (234)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcC
Confidence            66677777777777777777766543222 3345555666777777777777777765432   3445666677777777


Q ss_pred             chhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHH
Q 044786          198 HFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIV  246 (340)
Q Consensus       198 ~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  246 (340)
                      ++++|...+++..+. .+.+...+..+...+...|+.++ +..+.+.+.
T Consensus       184 ~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-a~~~~~~~~  230 (234)
T TIGR02521       184 QYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAA-AQRYGAQLQ  230 (234)
T ss_pred             CHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHH-HHHHHHHHH
Confidence            777777777777664 22334445555566666666644 555555443

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.

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.35  E-value=2.7e-10  Score=98.12  Aligned_cols=261  Identities=13%  Similarity=0.033  Sum_probs=197.5

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCC-CCCHHHHHHHHHHHHhcCChhH-HHHHHhhcCcCCcccHHHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNI-KPTLLFLNRLLLMHVSCGQLDT-ARQLFDEMPLRDFNSWAVMIVGYV   88 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~-~~~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~li~~~~   88 (340)
                      .....+-.+|...+++++|..+|+.+.+.... --+..+|.+.+-.+-+.=.+.- |.++.+ +....+.+|.++..+|.
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~-~~~~sPesWca~GNcfS  432 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLID-TDPNSPESWCALGNCFS  432 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHh-hCCCCcHHHHHhcchhh
Confidence            34567888999999999999999999876322 2267888888865544322222 222222 22446789999999999


Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCH
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      -+++.+.|++.|++..+.+      +-...+|+.+..=+.....+|.|...|+..+..... +...|.-+.-.|.+.+++
T Consensus       433 LQkdh~~Aik~f~RAiQld------p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~  505 (638)
T KOG1126|consen  433 LQKDHDTAIKCFKRAIQLD------PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKL  505 (638)
T ss_pred             hhhHHHHHHHHHHHhhccC------CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchh
Confidence            9999999999999999884      448889999999999999999999999987765422 344555678899999999


Q ss_pred             HHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          169 EDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       169 ~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      +.|+-.|+...+-   +.+....+...+.+.|+.++|+.++++......+-...-|. ....+...++.++ +...++.+
T Consensus       506 e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~-~~~il~~~~~~~e-al~~LEeL  583 (638)
T KOG1126|consen  506 EFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH-RASILFSLGRYVE-ALQELEEL  583 (638)
T ss_pred             hHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH-HHHHHHhhcchHH-HHHHHHHH
Confidence            9999999998753   55667777788889999999999999997643222223333 3344555677766 88888887


Q ss_pred             HHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          246 VKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       246 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      +.. .+-+..++..+...|-+.|+.+.|..-|.-+.+
T Consensus       584 k~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  584 KEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            764 344667888899999999999999998887764

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=1e-09  Score=87.69  Aligned_cols=192  Identities=11%  Similarity=0.026  Sum_probs=116.0

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .+..+...+...|++++|.+.+++..+..      +.+...+..+...+...|++++|.+.++...+.... +...+..+
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~------p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~  105 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHD------PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNY  105 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHH
Confidence            46667777777888888888888777663      334556666777777777777777777777665433 34455556


Q ss_pred             HHHHHhhcCHHHHHHHHHHcccC-----ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCc
Q 044786          159 INFYGKFRCLEDADFVFSQLKRH-----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDD  233 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~  233 (340)
                      ...+...|++++|.+.+++..+.     ....+..+...+...|++++|...+++..+..  |                 
T Consensus       106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~-----------------  166 (234)
T TIGR02521       106 GTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--P-----------------  166 (234)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--c-----------------
Confidence            66666666666666666665431     12234444555555555555555555554421  2                 


Q ss_pred             hhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHH
Q 044786          234 DGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYL  311 (340)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~  311 (340)
                                        .+...+..+...+...|++++|...+++...  +.+...+..+...+...|+.++|..+.+.
T Consensus       167 ------------------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  228 (234)
T TIGR02521       167 ------------------QRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQ  228 (234)
T ss_pred             ------------------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence                              1233444555566666666666666666544  23445555566666666777777766666


Q ss_pred             HHH
Q 044786          312 MKA  314 (340)
Q Consensus       312 m~~  314 (340)
                      +..
T Consensus       229 ~~~  231 (234)
T TIGR02521       229 LQK  231 (234)
T ss_pred             HHh
Confidence            543

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.30  E-value=1.2e-09  Score=98.41  Aligned_cols=257  Identities=8%  Similarity=-0.061  Sum_probs=159.7

Q ss_pred             CHHHHHHHHHHHHh-----cCChhHHHHHHhhcCcCCc---ccHHHHHHHHH---------cccChhHHHHHHHHHHHhh
Q 044786           45 TLLFLNRLLLMHVS-----CGQLDTARQLFDEMPLRDF---NSWAVMIVGYV---------DVADYQECITLFAEMMKRK  107 (340)
Q Consensus        45 ~~~~~~~li~~~~~-----~~~~~~a~~~~~~~~~~~~---~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~~  107 (340)
                      +...|...+.+-..     .+++++|.++|++..+.|+   ..|..+..++.         ..+++++|...+++..+.+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld  334 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD  334 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC
Confidence            44555555554321     1346788888887774433   24544444433         2244778888888888774


Q ss_pred             cCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCCh---h
Q 044786          108 KGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNT---V  184 (340)
Q Consensus       108 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~  184 (340)
                            +-+...+..+...+...|++++|...+++..+.++. +...+..+...+...|++++|...+++..+.+.   .
T Consensus       335 ------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~  407 (553)
T PRK12370        335 ------HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAA  407 (553)
T ss_pred             ------CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChh
Confidence                  445667777777778888888888888888877643 455677778888888888888888888764322   2


Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDM  263 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~  263 (340)
                      .+..+...+...|++++|...+++..... .|+ ...+..+-.++...|+.++ |...+..+... .+.+....+.+...
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~e-A~~~~~~~~~~-~~~~~~~~~~l~~~  484 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHEL-ARKLTKEISTQ-EITGLIAVNLLYAE  484 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHH-HHHHHHHhhhc-cchhHHHHHHHHHH
Confidence            33334445666788888888888876543 243 3335556666777888876 55555554432 12233444555566


Q ss_pred             HhccCCHHHHHHHHHHhhc----CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          264 YGKCRLLRDAERVFELIVD----KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       264 ~~~~~~~~~A~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      |+..|  +.|...++.+.+    .+....+  +-..|.-.|+.+.+..+ +++.+.|
T Consensus       485 ~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        485 YCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             HhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            67666  467776666654    2322233  33344456666666665 7776664

>PRK12370 invasion protein regulator; Provisional

Probab=99.28  E-value=2.9e-09  Score=95.89  Aligned_cols=228  Identities=11%  Similarity=-0.005  Sum_probs=163.6

Q ss_pred             CcccHHHHHHHHHc-----ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhh---------hccchhhHHHHHH
Q 044786           76 DFNSWAVMIVGYVD-----VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV---------CTMNMELGKQVHG  141 (340)
Q Consensus        76 ~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~---------~~~~~~~a~~~~~  141 (340)
                      +...|...+++-..     .+.+++|.+.|++..+..      +-+...|..+..++.         ..+++++|...++
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld------P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~  328 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS------PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAI  328 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC------CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHH
Confidence            44456566665322     245679999999999883      233445555544443         2345889999999


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh
Q 044786          142 LLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS  218 (340)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  218 (340)
                      +..+.... +...+..+...+...|++++|...|++..+  | +...+..+...+...|++++|+..+++..+.  .|+.
T Consensus       329 ~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~  405 (553)
T PRK12370        329 KATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTR  405 (553)
T ss_pred             HHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCC
Confidence            99988754 677888888899999999999999999764  3 4567888899999999999999999999885  4543


Q ss_pred             h-hHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C-cHHHHHHHHHH
Q 044786          219 Y-TFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K-NIASWNAMLVG  295 (340)
Q Consensus       219 ~-t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~li~~  295 (340)
                      . .+......+...|++++ +...++.......+-++..+..+..+|...|++++|...++++... | +...++.+...
T Consensus       406 ~~~~~~~~~~~~~~g~~ee-A~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~  484 (553)
T PRK12370        406 AAAGITKLWITYYHTGIDD-AIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAE  484 (553)
T ss_pred             hhhHHHHHHHHHhccCHHH-HHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHH
Confidence            2 23334444566788866 6666666655432335556777888899999999999999998653 3 34455666667


Q ss_pred             HHHcCchHHHHHHHHHHHHc
Q 044786          296 YIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       296 ~~~~~~~~~a~~~~~~m~~~  315 (340)
                      |+..|  ++|...++.+.+.
T Consensus       485 ~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        485 YCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HhccH--HHHHHHHHHHHHH
Confidence            78777  4777877776543

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.26  E-value=3.7e-08  Score=88.00  Aligned_cols=298  Identities=11%  Similarity=0.062  Sum_probs=226.4

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHH---H
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAV---M   83 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---l   83 (340)
                      |.....|.+|...|-+.|+.+++...+-..-..  .+-|...|..+-....+.|.++.|.-+|.+..+.++.-|..   -
T Consensus       170 p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL--~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~er  247 (895)
T KOG2076|consen  170 PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL--NPKDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYER  247 (895)
T ss_pred             ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHHH
Confidence            556778999999999999999999887555433  45577899999999999999999999999988655554443   4


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccc-hHH----HHHHHHHHhhhccchhhHHHHHHHHHHc-CCCCchhHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVF-PAW----IIVCVLKACVCTMNMELGKQVHGLLFKL-GSSRNISLTGS  157 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~  157 (340)
                      +..|-+.|+...|...|.++.+..      +| |..    .-..+++.+...++.+.|.+.++..... +-..+...++.
T Consensus       248 s~L~~~~G~~~~Am~~f~~l~~~~------p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni  321 (895)
T KOG2076|consen  248 SSLYQKTGDLKRAMETFLQLLQLD------PPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNI  321 (895)
T ss_pred             HHHHHHhChHHHHHHHHHHHHhhC------CchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHH
Confidence            567888999999999999999883      22 222    3334456666677778888888877653 22345667889


Q ss_pred             HHHHHHhhcCHHHHHHHHHHccc----C----------------------ChhhHH----HHHHHHhccCchhHHHHHHH
Q 044786          158 LINFYGKFRCLEDADFVFSQLKR----H----------------------NTVVWT----AKIVNNCREGHFHQVFNDFK  207 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~----~----------------------~~~~~~----~li~~~~~~~~~~~a~~~~~  207 (340)
                      +...|.+...++.|......+..    +                      +..+|+    -+.-++.+.+..+....+..
T Consensus       322 ~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~  401 (895)
T KOG2076|consen  322 LAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLH  401 (895)
T ss_pred             HHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHH
Confidence            99999999999999887766643    1                      111121    23344555566666666666


Q ss_pred             HHhhcccCC--ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC
Q 044786          208 EMGRERIKK--NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK  284 (340)
Q Consensus       208 ~m~~~~~~p--~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~  284 (340)
                      -+.+..+.|  +...|--+..++...|++.+ |..++..+......-+..+|-.+..+|-..|.+++|.+.++.... .|
T Consensus       402 ~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~-Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p  480 (895)
T KOG2076|consen  402 FLVEDNVWVSDDVDLYLDLADALTNIGKYKE-ALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAP  480 (895)
T ss_pred             HHHHhcCChhhhHHHHHHHHHHHHhcccHHH-HHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            677766545  35668889999999999977 888888888776666788999999999999999999999999876 34


Q ss_pred             -cHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          285 -NIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       285 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                       +...--+|-..+-+.|+.++|.+++..|.
T Consensus       481 ~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  481 DNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             CchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence             55556667778899999999999999964

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.24  E-value=4.8e-09  Score=90.84  Aligned_cols=232  Identities=9%  Similarity=0.034  Sum_probs=174.7

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh---hcCCccccchHH-HHHHHHHHhhhccchhhHHHHHHHHHHc-----CC-
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR---KKGHMLLVFPAW-IIVCVLKACVCTMNMELGKQVHGLLFKL-----GS-  148 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-  148 (340)
                      +...+...|...|+++.|+.++++..+.   ..|.  ..|... ..+.+...|...+++++|..+|+++.+.     |- 
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~--~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGL--KHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCc--cCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            4556888999999999999999988766   1122  144444 3445778888999999999999988754     21 


Q ss_pred             CC-chhHHHHHHHHHHhhcCHHHHHHHHHHccc----------CCh-hhHHHHHHHHhccCchhHHHHHHHHHhhc---c
Q 044786          149 SR-NISLTGSLINFYGKFRCLEDADFVFSQLKR----------HNT-VVWTAKIVNNCREGHFHQVFNDFKEMGRE---R  213 (340)
Q Consensus       149 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----------~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~  213 (340)
                      .| -..+++.|..+|.+.|++++|...++...+          +.+ .-++.+...|+..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            12 234677788899999999999888877542          122 23777888999999999999999876542   1


Q ss_pred             cCCC----hhhHHHHHHhcccCCchhchHHHHHHHHHHhC----C---CccHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          214 IKKN----SYTFSSVLKACGGVDDDGNCGRQMHANIVKIG----L---ESDEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       214 ~~p~----~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~----~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      +.++    ..+++.+-..|.+.|++.+ +..+++......    -   .-....++.|-..|.+.+++++|.++|.+...
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~e-a~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKE-AEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhH-HHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            2333    3578899999999999988 777776654331    2   22356778899999999999999999987764


Q ss_pred             --------CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          283 --------KK-NIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       283 --------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                              .| ...+|..|...|.+.|++++|.++.+...
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                    23 34689999999999999999999887764

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.24  E-value=3.3e-08  Score=80.56  Aligned_cols=273  Identities=8%  Similarity=0.030  Sum_probs=195.0

Q ss_pred             HHHHHHHh--cCChhHHHHHHhhcCcCCcc---cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           51 RLLLMHVS--CGQLDTARQLFDEMPLRDFN---SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        51 ~li~~~~~--~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      .+..+..+  .|++..|+++..+-.+....   .|-.-..+--..|+.+.+-+.+.+..+..  .   .++...+-...+
T Consensus        87 ~~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~--~---~~~l~v~ltrar  161 (400)
T COG3071          87 ALNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELA--G---DDTLAVELTRAR  161 (400)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccC--C---CchHHHHHHHHH
Confidence            34444433  48899999888776543222   34444566677788999999888887761  1   345556667777


Q ss_pred             HhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC-----------hhhHHHHHHHHh
Q 044786          126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN-----------TVVWTAKIVNNC  194 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------~~~~~~li~~~~  194 (340)
                      .....|+++.|..-.+.+.+.+.. ++........+|.+.|++.+...++..+.+..           -.+|+.++.-..
T Consensus       162 lll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~  240 (400)
T COG3071         162 LLLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQAR  240 (400)
T ss_pred             HHHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHh
Confidence            788888889998888888888755 56677888889999999999999988887652           235777777666


Q ss_pred             ccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHH
Q 044786          195 REGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAE  274 (340)
Q Consensus       195 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  274 (340)
                      ..+..+.-...|+....+ .+-++..-..++.-+...|+.++ |..+.....+.+..|+..    ..-.+.+-++.+.-.
T Consensus       241 ~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~-A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~  314 (400)
T COG3071         241 DDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDE-AQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLI  314 (400)
T ss_pred             ccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHH-HHHHHHHHHHhccChhHH----HHHhhcCCCCchHHH
Confidence            666666666667666543 34445555667777788888766 666666666666666622    222344566666655


Q ss_pred             HHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCcc
Q 044786          275 RVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISAS  337 (340)
Q Consensus       275 ~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~  337 (340)
                      +..+....  +.++..+.+|..-|.+++.|.+|...|+.-.  ...|+..+|..+-.++.+.|++
T Consensus       315 k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~~~~g~~  377 (400)
T COG3071         315 KAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAAL--KLRPSASDYAELADALDQLGEP  377 (400)
T ss_pred             HHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHHHHcCCh
Confidence            55555443  2356788899999999999999999999554  5589999999999999999875

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.20  E-value=3.4e-08  Score=88.96  Aligned_cols=309  Identities=13%  Similarity=0.058  Sum_probs=216.0

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHH----hhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC-------C
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIR----KRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR-------D   76 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~   76 (340)
                      -|...|-.+...+- .++...++.+|....    .. +-++.+...|.+...+...|++++|...|......       +
T Consensus       412 ~d~~a~l~laql~e-~~d~~~sL~~~~~A~d~L~~~-~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~d  489 (1018)
T KOG2002|consen  412 VDSEAWLELAQLLE-QTDPWASLDAYGNALDILESK-GKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKD  489 (1018)
T ss_pred             ccHHHHHHHHHHHH-hcChHHHHHHHHHHHHHHHHc-CCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcc
Confidence            34555655555554 344444466665543    44 66688899999999999999999999999876522       2


Q ss_pred             cc------cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHH-HHHHHHHHhhhccchhhHHHHHHHHHHcCCC
Q 044786           77 FN------SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW-IIVCVLKACVCTMNMELGKQVHGLLFKLGSS  149 (340)
Q Consensus        77 ~~------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  149 (340)
                      ..      +--.+.+.+-..++++.|.+.|..+...       .|.-. .|--++......+...+|...+.+..+.. .
T Consensus       490 e~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke-------hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~  561 (1018)
T KOG2002|consen  490 EGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE-------HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-S  561 (1018)
T ss_pred             ccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH-------CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-c
Confidence            21      1222445555667899999999999988       34433 44444434444567888888888887665 2


Q ss_pred             CchhHHHHHHHHHHhhcCHHHHHHHHHHccc-----CChhhHHHHHHHHhc------------cCchhHHHHHHHHHhhc
Q 044786          150 RNISLTGSLINFYGKFRCLEDADFVFSQLKR-----HNTVVWTAKIVNNCR------------EGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~------------~~~~~~a~~~~~~m~~~  212 (340)
                      .++..+..+.+.+.+...+..|.+-|+.+.+     +|+.+.-+|.+.|.+            .+..++|+.+|.+..+.
T Consensus       562 ~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~  641 (1018)
T KOG2002|consen  562 SNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN  641 (1018)
T ss_pred             CCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc
Confidence            3555666677788888888888886655432     244444444443332            23567888888888764


Q ss_pred             ccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc----CCcHHH
Q 044786          213 RIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD----KKNIAS  288 (340)
Q Consensus       213 ~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~----~~~~~~  288 (340)
                      . +-|...-+-+--.++..|++.+ |..+|....+... -...+|-.+.++|..+|++..|.++|+....    +.++..
T Consensus       642 d-pkN~yAANGIgiVLA~kg~~~~-A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~v  718 (1018)
T KOG2002|consen  642 D-PKNMYAANGIGIVLAEKGRFSE-ARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEV  718 (1018)
T ss_pred             C-cchhhhccchhhhhhhccCchH-HHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHH
Confidence            2 2355666666677888899866 8999988887653 3556777899999999999999999987765    357888


Q ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHH
Q 044786          289 WNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRI  329 (340)
Q Consensus       289 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~  329 (340)
                      .+.|..++.+.|.+.+|.+.+.........-....||..+.
T Consensus       719 l~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v  759 (1018)
T KOG2002|consen  719 LHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALV  759 (1018)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHH
Confidence            89999999999999999998888777765555566665543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.19  E-value=4.7e-09  Score=90.88  Aligned_cols=167  Identities=14%  Similarity=0.109  Sum_probs=74.3

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhh----cCC-CCCHH-HHHHHHHHHHhcCChhHHHHHHhhcCc-------C-C-
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKR----VNI-KPTLL-FLNRLLLMHVSCGQLDTARQLFDEMPL-------R-D-   76 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~g~-~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~-------~-~-   76 (340)
                      ++..+...|...|+++.|.+++++..+.    .|. .|... ..+.+-..|...+++++|..+|+++..       + + 
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            3444555566666666666666555443    111 12222 222244455555666655555555441       1 1 


Q ss_pred             --cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCcc-ccchHH-HHHHHHHHhhhccchhhHHHHHHHHHHc---CCC
Q 044786           77 --FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHML-LVFPAW-IIVCVLKACVCTMNMELGKQVHGLLFKL---GSS  149 (340)
Q Consensus        77 --~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~  149 (340)
                        ..+++.|...|.+.|++++|...++...+.-..... ..|... .++.+...|...+.+++|..+++...+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence              113455555556666666555555554433111000 011111 3344444455555555555555433321   011


Q ss_pred             C----chhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          150 R----NISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       150 ~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      +    -..+++.|...|.+.|++++|+++|++.
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~a  393 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKA  393 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            1    1234445555555555555555555444

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.19  E-value=3.1e-08  Score=82.19  Aligned_cols=165  Identities=13%  Similarity=0.085  Sum_probs=120.5

Q ss_pred             HhhcCHHHHHHHHHHcccCChhhHHHH---HHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHH
Q 044786          163 GKFRCLEDADFVFSQLKRHNTVVWTAK---IVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGR  239 (340)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~  239 (340)
                      ...|++++|.+.|++....|...-.+|   ...+-..|+.++|++.|-++..- +.-+....-.+...|....+..+ +.
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aq-ai  578 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQ-AI  578 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHH-HH
Confidence            345889999999999988876554433   33566789999999999887652 12344455556666777776644 33


Q ss_pred             HHHHHHHHhC-CCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          240 QMHANIVKIG-LESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       240 ~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      .++  |.... ++-|+.+..-|.+.|-+.|+-..|.+.+-+--.  +-|+.+..=|..-|....-+++|+..|++..  -
T Consensus       579 e~~--~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaa--l  654 (840)
T KOG2003|consen  579 ELL--MQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--L  654 (840)
T ss_pred             HHH--HHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--h
Confidence            333  33333 455889999999999999999999987644332  2366676667777888999999999999863  5


Q ss_pred             CccchhHHHHHHHHhhh
Q 044786          317 IQIQESLINDLRIACSS  333 (340)
Q Consensus       317 ~~~~~~t~~~ll~a~~~  333 (340)
                      ++|+..-|-.++..|.+
T Consensus       655 iqp~~~kwqlmiasc~r  671 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFR  671 (840)
T ss_pred             cCccHHHHHHHHHHHHH
Confidence            69999999999998865

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.15  E-value=6.6e-09  Score=82.47  Aligned_cols=225  Identities=12%  Similarity=0.005  Sum_probs=180.8

Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLIN  160 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  160 (340)
                      +-+.++|.+.|.+.+|.+.++..++.       .|-..||..|-+.|.+..++..|+.++.+-++.- +-++....-+..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q-------~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~AR  298 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ-------FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQAR  298 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc-------CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHH
Confidence            34788999999999999999999988       7888999999999999999999999999887763 224434455777


Q ss_pred             HHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhch
Q 044786          161 FYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNC  237 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~  237 (340)
                      .+-..++.++|.++|+...+.   ++.....+...|.-.++++-|+.+|+++.+-|+. +...|+.+--.|.-.+.++- 
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~-  376 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDL-  376 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhh-
Confidence            888899999999999998654   5556666777888899999999999999999864 56678777777777777744 


Q ss_pred             HHHHHHHHHHhCCCc--cHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          238 GRQMHANIVKIGLES--DEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      +..-++.....--.|  -..+|-.|-......|++..|.+-|+-....  .+...+|.|..--.+.|++++|..+++...
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            554455444433334  3457778888888899999999999988753  356789999888899999999999999876


Q ss_pred             Hc
Q 044786          314 AS  315 (340)
Q Consensus       314 ~~  315 (340)
                      ..
T Consensus       457 s~  458 (478)
T KOG1129|consen  457 SV  458 (478)
T ss_pred             hh
Confidence            55

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.13  E-value=5.3e-07  Score=74.13  Aligned_cols=303  Identities=8%  Similarity=-0.043  Sum_probs=216.9

Q ss_pred             CCCCCCCcchhHHHHHHhhh--ccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            3 NLCLPITTDMYTCLIKECTF--QKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         3 ~~g~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      .-.++|...+...-+.++++  .++...|.+++-.+....-++-|......+...+...|+.++|...|+....-|+.+.
T Consensus       187 ~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i  266 (564)
T KOG1174|consen  187 AATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNV  266 (564)
T ss_pred             heecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhh
Confidence            34556666666666666654  3444555555544444424677888889999999999999999999998875544432


Q ss_pred             H---HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHH
Q 044786           81 A---VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGS  157 (340)
Q Consensus        81 ~---~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  157 (340)
                      .   ...-.+.+.|+.+....+...+....      ..+...|..-+.......+++.|+.+-+...+.... +...|-.
T Consensus       267 ~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~------~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alil  339 (564)
T KOG1174|consen  267 EAMDLYAVLLGQEGGCEQDSALMDYLFAKV------KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALIL  339 (564)
T ss_pred             hhHHHHHHHHHhccCHhhHHHHHHHHHhhh------hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHh
Confidence            2   22233457788888888888887663      455566666666677788999999988887776533 4455555


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcc--cC-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHH-HhcccCCc
Q 044786          158 LINFYGKFRCLEDADFVFSQLK--RH-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVL-KACGGVDD  233 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll-~~~~~~~~  233 (340)
                      -...+...++.++|.-.|+...  .| +..+|.-++.+|...|++.+|..+-+...+. +.-+..+...+- ..|.....
T Consensus       340 KG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~  418 (564)
T KOG1174|consen  340 KGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPR  418 (564)
T ss_pred             ccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCch
Confidence            5677888999999999999864  43 7889999999999999999998877665543 223344443331 23333333


Q ss_pred             hhchHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHHHHHH
Q 044786          234 DGNCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATKFLYL  311 (340)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~  311 (340)
                      ..+-++.+++.-.+  +.| -....+.+.+.+...|+...+..+++.... .||....+.|.+.+.....+.+|++.|..
T Consensus       419 ~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~  496 (564)
T KOG1174|consen  419 MREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYK  496 (564)
T ss_pred             hHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            33447777766544  344 345667788889999999999999988765 58999999999999999999999999887


Q ss_pred             HHHc
Q 044786          312 MKAS  315 (340)
Q Consensus       312 m~~~  315 (340)
                      ....
T Consensus       497 ALr~  500 (564)
T KOG1174|consen  497 ALRQ  500 (564)
T ss_pred             HHhc
Confidence            6544

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.13  E-value=5.5e-07  Score=75.33  Aligned_cols=99  Identities=12%  Similarity=0.149  Sum_probs=63.3

Q ss_pred             CChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCc----HHHHHH
Q 044786          216 KNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKN----IASWNA  291 (340)
Q Consensus       216 p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~  291 (340)
                      |-..+|..-|..=.+.+.+++ +..+++.....+ +.+..+|......-...|+.+.|..+|+-..++|.    ...|.+
T Consensus       435 PK~KlFk~YIelElqL~efDR-cRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwka  512 (677)
T KOG1915|consen  435 PKDKLFKGYIELELQLREFDR-CRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKA  512 (677)
T ss_pred             CchhHHHHHHHHHHHHhhHHH-HHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHH
Confidence            333344433433344555544 556666555543 33666676666666677888888888887777663    345666


Q ss_pred             HHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          292 MLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       292 li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      .|.-=...|.+++|..+|+++.+..
T Consensus       513 YIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  513 YIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             hhhhhhhcchHHHHHHHHHHHHHhc
Confidence            6666668888899999998887663

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.12  E-value=8.8e-07  Score=76.99  Aligned_cols=310  Identities=8%  Similarity=-0.017  Sum_probs=216.1

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGY   87 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   87 (340)
                      .+|+.-.+.|.+.+.++-|..+|....+.  ++-+...|......--..|..++...+|++...   +....|-.....+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHH
Confidence            35566666677777777777777777765  555667777777666677888888888887763   3444566677778


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                      ...|+...|..++.+..+..      +.+...|-..++.-.....++.|..+|......  .|+..+|..-+..-.-.++
T Consensus       595 w~agdv~~ar~il~~af~~~------pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~  666 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEAN------PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDN  666 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhC------CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhh
Confidence            88899999999999888873      446668888888888888999999998877764  5677777777777777888


Q ss_pred             HHHHHHHHHHcccC--C-hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh-hhHHHHHHhcccCCchhchHHHHHH
Q 044786          168 LEDADFVFSQLKRH--N-TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS-YTFSSVLKACGGVDDDGNCGRQMHA  243 (340)
Q Consensus       168 ~~~a~~~~~~~~~~--~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~~~~~~~~  243 (340)
                      .++|.+++++..+.  + .-.|-.+.+.+-+.++.+.|.+.|..=.+.  .|+. ..|..+...=.+.|.+.+ |..+++
T Consensus       667 ~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~--cP~~ipLWllLakleEk~~~~~r-AR~ild  743 (913)
T KOG0495|consen  667 VEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK--CPNSIPLWLLLAKLEEKDGQLVR-ARSILD  743 (913)
T ss_pred             HHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc--CCCCchHHHHHHHHHHHhcchhh-HHHHHH
Confidence            99999988877654  2 224556666677777777777776554432  3443 344444444456666656 777777


Q ss_pred             HHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--------------------------------CCcHHHHHH
Q 044786          244 NIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--------------------------------KKNIASWNA  291 (340)
Q Consensus       244 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------------------------------~~~~~~~~~  291 (340)
                      .....+ +-+...|-..|++-.+.|+.+.|..+..+..+                                ..|+...-.
T Consensus       744 rarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVlla  822 (913)
T KOG0495|consen  744 RARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLA  822 (913)
T ss_pred             HHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHH
Confidence            666544 44778888888888888888888877665542                                124555555


Q ss_pred             HHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcC
Q 044786          292 MLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSIS  335 (340)
Q Consensus       292 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g  335 (340)
                      +...|-...++++|.+.|.+-...+ .-+..+|.-+..-....|
T Consensus       823 ia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG  865 (913)
T KOG0495|consen  823 IAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHG  865 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhC
Confidence            6666777788888999888876553 223356666666666666

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.11  E-value=1.5e-07  Score=78.76  Aligned_cols=214  Identities=10%  Similarity=0.011  Sum_probs=153.2

Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      |+...|..-|+..+...      +-+...|.-+...|....+.++..+.|+...+.+.. ++.+|.-=...+.-.+++++
T Consensus       340 g~~~~a~~d~~~~I~l~------~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  340 GDSLGAQEDFDAAIKLD------PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             CCchhhhhhHHHHHhcC------cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHH
Confidence            44445555555555442      223333777777888888888888888888887755 66677766777777888999


Q ss_pred             HHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          171 ADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       171 a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                      |..=|++...-   ++..|-.+--+..+.+++++++..|++..++ ++-....|+-....+...++++. +...++..+.
T Consensus       413 A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~-A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDK-AVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHH-HHHHHHHHHh
Confidence            99988887644   4455655555666788999999999999876 44457889999999999999988 6666665554


Q ss_pred             hCCC-------ccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          248 IGLE-------SDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       248 ~~~~-------~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      ..-.       +.+.+--.++-.-. .+++..|..+++...+  +.....|..|...-.++|+.++|+++|++-..
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3211       22222223333223 3899999999998876  34677899999999999999999999998643

>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=99.09  E-value=8.7e-07  Score=77.90  Aligned_cols=280  Identities=13%  Similarity=0.117  Sum_probs=195.1

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcc--c-HHHHHHHHHcc---
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFN--S-WAVMIVGYVDV---   90 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~-~~~li~~~~~~---   90 (340)
                      ...+...|++++|++.++.-...  +.............+.+.|+.++|..++..+..+|+.  . |..+..+..-.   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccc
Confidence            44567889999999999887655  5555667778889999999999999999999965554  3 44455555222   


Q ss_pred             --cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccch-hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786           91 --ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNM-ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus        91 --g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                        .+.+...++|+++...       .|.......+.-.+.....+ ..+..++..+.+.|++   .+++.|-..|....+
T Consensus        89 ~~~~~~~~~~~y~~l~~~-------yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K  158 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEK-------YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEK  158 (517)
T ss_pred             ccccHHHHHHHHHHHHHh-------CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhH
Confidence              2567788899988777       45444444443333332233 3455566777778854   366777777776655


Q ss_pred             HHHHHHHHHHccc------------------CChh--hHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHH
Q 044786          168 LEDADFVFSQLKR------------------HNTV--VWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLK  226 (340)
Q Consensus       168 ~~~a~~~~~~~~~------------------~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~  226 (340)
                      ..-..+++.....                  |...  ++.-+-..|...|++++|++++++..++  .|+ ...|..-..
T Consensus       159 ~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Kar  236 (517)
T PF12569_consen  159 AAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKAR  236 (517)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHH
Confidence            5555555555321                  1222  3455667788899999999999999886  566 556778888


Q ss_pred             hcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCC-----cHH----HH--HHHHHH
Q 044786          227 ACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKK-----NIA----SW--NAMLVG  295 (340)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-----~~~----~~--~~li~~  295 (340)
                      .+-+.|++.+ |....+...... .-|..+-+-.+..+.++|++++|.+++.......     |..    .|  .-...+
T Consensus       237 ilKh~G~~~~-Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a  314 (517)
T PF12569_consen  237 ILKHAGDLKE-AAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEA  314 (517)
T ss_pred             HHHHCCCHHH-HHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHH
Confidence            8999999977 666666655543 2377777888889999999999999999887532     111    22  334568


Q ss_pred             HHHcCchHHHHHHHHHH
Q 044786          296 YIRNGLYVEATKFLYLM  312 (340)
Q Consensus       296 ~~~~~~~~~a~~~~~~m  312 (340)
                      |.+.|++..|++-|...
T Consensus       315 ~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  315 YLRQGDYGLALKRFHAV  331 (517)
T ss_pred             HHHHhhHHHHHHHHHHH
Confidence            99999999988766554

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 [], [].

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.08  E-value=4.8e-07  Score=81.81  Aligned_cols=236  Identities=11%  Similarity=0.003  Sum_probs=161.0

Q ss_pred             CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhH
Q 044786           75 RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISL  154 (340)
Q Consensus        75 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  154 (340)
                      .|++..+.|.+-|.-.|++..+..+...+......-   ..-+..|..+.+++-..|++++|.++|.+..+.........
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~---~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~  344 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENK---SIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLP  344 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhh---HHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccc
Confidence            366677888888888889998888888877662000   23445688899999999999999999888777654433445


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccC----chhHHHHHHHHHhhcccCCChhhHHHHHHh
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREG----HFHQVFNDFKEMGRERIKKNSYTFSSVLKA  227 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~  227 (340)
                      +--+...|.+.|+++.+...|+.+.+.   +..+..++...|...+    ..+.|..++.+..+.- +.|...|..+-..
T Consensus       345 ~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql  423 (1018)
T KOG2002|consen  345 LVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQL  423 (1018)
T ss_pred             ccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHH
Confidence            567888999999999999999887643   4556666666666654    4566666666665532 3345566665555


Q ss_pred             cccCCchh--chHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC------CcHH-------HHHHH
Q 044786          228 CGGVDDDG--NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK------KNIA-------SWNAM  292 (340)
Q Consensus       228 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~------~~~~-------~~~~l  292 (340)
                      +....-+.  .+.......+...+..+.+...|.+...+...|++..|...|......      ++..       -|| +
T Consensus       424 ~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-l  502 (1018)
T KOG2002|consen  424 LEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-L  502 (1018)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-H
Confidence            54433321  112222334556666788888899999999999999999999887653      2221       232 3


Q ss_pred             HHHHHHcCchHHHHHHHHHHHHc
Q 044786          293 LVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       293 i~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ...+-..++++.|.+.|......
T Consensus       503 arl~E~l~~~~~A~e~Yk~Ilke  525 (1018)
T KOG2002|consen  503 ARLLEELHDTEVAEEMYKSILKE  525 (1018)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHH
Confidence            34444567888888888888765

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.07  E-value=2.1e-08  Score=79.73  Aligned_cols=225  Identities=8%  Similarity=0.023  Sum_probs=184.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcC--cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH
Q 044786           49 LNRLLLMHVSCGQLDTARQLFDEMP--LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA  126 (340)
Q Consensus        49 ~~~li~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~  126 (340)
                      -+.+..+|.+.|-+.+|...|+.-.  .|-+.||-.|-++|.+..++..|+.+|.+-++.      ++.++.....+.+.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~------fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS------FPFDVTYLLGQARI  299 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc------CCchhhhhhhhHHH
Confidence            3677889999999999999998766  467789999999999999999999999987766      35555566677888


Q ss_pred             hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHH
Q 044786          127 CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVF  203 (340)
Q Consensus       127 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~  203 (340)
                      +...++.+++.++|+...+.... ++....++...|.-.++.+-|...|+++.+-   +...|+.+..+|.-.++++-++
T Consensus       300 ~eam~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhH
Confidence            89999999999999999887633 6666777788888999999999999998754   6778999999999999999999


Q ss_pred             HHHHHHhhcccCCCh--hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          204 NDFKEMGRERIKKNS--YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       204 ~~~~~m~~~~~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      .-|.+....--.|+.  ..|-.+-......|++. .+...++.....+ .-+...+|.|.-.-.+.|+++.|..+++..+
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~n-lA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFN-LAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchH-HHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            999988765444543  23555666677889984 4888888877654 3466788888888899999999999999887


Q ss_pred             c
Q 044786          282 D  282 (340)
Q Consensus       282 ~  282 (340)
                      +
T Consensus       457 s  457 (478)
T KOG1129|consen  457 S  457 (478)
T ss_pred             h
Confidence            6

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.05  E-value=2.2e-06  Score=74.65  Aligned_cols=289  Identities=15%  Similarity=0.096  Sum_probs=210.9

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--cCCcccHHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--LRDFNSWAVMIVGY   87 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~   87 (340)
                      ...|-.........|+...|..++......  .+.+...|-.-+..-.....++.|..+|.+..  .++..+|.--++..
T Consensus       584 e~lwlM~ake~w~agdv~~ar~il~~af~~--~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~e  661 (913)
T KOG0495|consen  584 EILWLMYAKEKWKAGDVPAARVILDQAFEA--NPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLE  661 (913)
T ss_pred             hhHHHHHHHHHHhcCCcHHHHHHHHHHHHh--CCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHH
Confidence            334445555666778888888888888766  34466778888888888888888888888766  44555677666666


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchH-HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPA-WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      --.++.++|++++++.++.       -|+- ..|-.+...+-+.++++.|...|..=.+.- +..+..|-.|...=-+.|
T Consensus       662 r~ld~~eeA~rllEe~lk~-------fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c-P~~ipLWllLakleEk~~  733 (913)
T KOG0495|consen  662 RYLDNVEEALRLLEEALKS-------FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC-PNSIPLWLLLAKLEEKDG  733 (913)
T ss_pred             HHhhhHHHHHHHHHHHHHh-------CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC-CCCchHHHHHHHHHHHhc
Confidence            6778888888888888777       3443 366666677777788888877775444332 234557777777777888


Q ss_pred             CHHHHHHHHHHcc--cC-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHH
Q 044786          167 CLEDADFVFSQLK--RH-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHA  243 (340)
Q Consensus       167 ~~~~a~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~  243 (340)
                      .+..|..+++...  .| +...|-..|+.-.+.|+.+.|..++.+..+. ++.+...|..-|....+.++-..    ..+
T Consensus       734 ~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTk----s~D  808 (913)
T KOG0495|consen  734 QLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTK----SID  808 (913)
T ss_pred             chhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchH----HHH
Confidence            8999999998865  33 6778999999999999999999998887765 33445566666666666555211    223


Q ss_pred             HHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          244 NIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K-NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       244 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .+.+  +.-|+.+.-.+...+....+++.|.+.|.+.... | +-.+|.-+...+.++|.-+.-.+++......
T Consensus       809 ALkk--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  809 ALKK--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHh--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3333  4557777778888899999999999999998762 3 5578888999999999888888888877543

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

Probab=99.04  E-value=2.6e-06  Score=72.82  Aligned_cols=295  Identities=7%  Similarity=-0.029  Sum_probs=180.8

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHH-HHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFL-NRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVG   86 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~   86 (340)
                      ..|..+...+...|+.+.+.+.+....+.....++.... ......+...|++++|.+.+++..+.   +...+.. ...
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHH
Confidence            345556666667788888777777766551223333222 22234556789999999999987633   3223332 223


Q ss_pred             HHc----ccChhHHHHHHHHHHHhhcCCccccch-HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           87 YVD----VADYQECITLFAEMMKRKKGHMLLVFP-AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        87 ~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      +..    .+..+.+.+.+....    +.   .|+ ......+...+...|++++|.+.++...+.... +...+..+...
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~----~~---~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i  157 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWA----PE---NPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHV  157 (355)
T ss_pred             HHHhcccccCchhHHHHHhccC----cC---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHH
Confidence            333    344444555444311    11   333 345556677888999999999999999988644 56778888999


Q ss_pred             HHhhcCHHHHHHHHHHcccC-----Ch--hhHHHHHHHHhccCchhHHHHHHHHHhhccc-CCChhhH-H--HHHHhccc
Q 044786          162 YGKFRCLEDADFVFSQLKRH-----NT--VVWTAKIVNNCREGHFHQVFNDFKEMGRERI-KKNSYTF-S--SVLKACGG  230 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~-~--~ll~~~~~  230 (340)
                      |...|++++|...+++..+.     +.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+..
T Consensus       158 ~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  237 (355)
T cd05804         158 LEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLEL  237 (355)
T ss_pred             HHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHh
Confidence            99999999999999987642     22  2355678889999999999999999864322 1112111 1  22333333


Q ss_pred             CCchhchHHHH---HHHHHHhCC-CccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--C---c------HHHHHHHHHH
Q 044786          231 VDDDGNCGRQM---HANIVKIGL-ESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--K---N------IASWNAMLVG  295 (340)
Q Consensus       231 ~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~---~------~~~~~~li~~  295 (340)
                      .|.... +..+   ......... ............++...|+.+.|..+++.+...  .   .      +...-....+
T Consensus       238 ~g~~~~-~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~  316 (355)
T cd05804         238 AGHVDV-GDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALY  316 (355)
T ss_pred             cCCCCh-HHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHH
Confidence            343211 2222   222111100 111222235677778899999999999988652  1   1      1112222234


Q ss_pred             HHHcCchHHHHHHHHHHHHc
Q 044786          296 YIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       296 ~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +...|++++|.+.+.+....
T Consensus       317 ~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         317 AFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            56899999999999887655

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.

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=5.6e-07  Score=76.75  Aligned_cols=280  Identities=9%  Similarity=-0.033  Sum_probs=202.1

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCC---cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHH
Q 044786           43 KPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRD---FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        43 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      +-++.....-.+-+...+++.+..++++.+.+.|   ...+-.-|.++...|+..+-..+=.++....      +-...+
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y------P~~a~s  314 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY------PSKALS  314 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC------CCCCcc
Confidence            3344444555556667788888888888877543   3456666778888888888777777777773      556678


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhcc
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCRE  196 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~  196 (340)
                      |.++.--|.-.|...+|.+.|......+.. -...|-.+...|.-.|..++|...|....+   ...-.+--+.--|.+.
T Consensus       315 W~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t  393 (611)
T KOG1173|consen  315 WFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRT  393 (611)
T ss_pred             hhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHh
Confidence            888888888889999999998877665533 234677778888888888888877765432   1222222234457778


Q ss_pred             CchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHh----CC-C-ccHHHHHHHHHHHhccCC
Q 044786          197 GHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKI----GL-E-SDEYVQCGLVDMYGKCRL  269 (340)
Q Consensus       197 ~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~----~~-~-~~~~~~~~li~~~~~~~~  269 (340)
                      ++.+-|..+|.+...  +.|+ +...+-+-...-..+.+.+ |..+++.....    +- + -...+++.|-++|-++++
T Consensus       394 ~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~-A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~  470 (611)
T KOG1173|consen  394 NNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPE-ALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNK  470 (611)
T ss_pred             ccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHH-HHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhh
Confidence            899999999988775  4564 5555555555555677766 66665544411    11 1 245678899999999999


Q ss_pred             HHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhc
Q 044786          270 LRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSI  334 (340)
Q Consensus       270 ~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~  334 (340)
                      +++|...++....  +.+..++.++.-.|...|+++.|.+.|.+-.  .+.|+..+...+|.-+...
T Consensus       471 ~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  471 YEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHHh
Confidence            9999999998876  4588899999999999999999999999874  6789998888888866543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.04  E-value=1.2e-07  Score=78.35  Aligned_cols=216  Identities=9%  Similarity=0.015  Sum_probs=117.3

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCC--HHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPT--LLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECI   97 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~   97 (340)
                      .+..+.++.-+.++.....+.|+  ...|..+...+.+.|+.++|...|++..+   .+...|+.+...+...|++++|.
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34556666666666643122222  24455666666777777777777766652   23446777777777777777777


Q ss_pred             HHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHH
Q 044786           98 TLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQ  177 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (340)
                      ..|++..+..      +-+..++..+..++...|++++|.+.++...+....  ..........+...++.++|...|++
T Consensus       119 ~~~~~Al~l~------P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~--~~~~~~~~~l~~~~~~~~~A~~~l~~  190 (296)
T PRK11189        119 EAFDSVLELD------PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN--DPYRALWLYLAESKLDPKQAKENLKQ  190 (296)
T ss_pred             HHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            7777777662      233456666666677777777777777776665432  11111112223345567777777754


Q ss_pred             cccC-ChhhHHHHHHHHhccCchhHHHHHHHHHhh---cc--cCC-ChhhHHHHHHhcccCCchhchHHHHHHHHHHhC
Q 044786          178 LKRH-NTVVWTAKIVNNCREGHFHQVFNDFKEMGR---ER--IKK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIG  249 (340)
Q Consensus       178 ~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~--~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~  249 (340)
                      .... +...|.. .......|+..++ ..+..+.+   ..  +.| ....|..+-..+.+.|+.++ |...++.....+
T Consensus       191 ~~~~~~~~~~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~-A~~~~~~Al~~~  266 (296)
T PRK11189        191 RYEKLDKEQWGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDE-AAALFKLALANN  266 (296)
T ss_pred             HHhhCCccccHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHhC
Confidence            3322 2222221 1222234444433 23333331   11  112 23456666667777777755 666666666544

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=5.5e-10  Score=58.85  Aligned_cols=33  Identities=33%  Similarity=0.498  Sum_probs=26.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC
Q 044786           41 NIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP   73 (340)
Q Consensus        41 g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   73 (340)
                      |+.||..+||+||++||+.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            778888888888888888888888888888774

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=4.5e-10  Score=59.19  Aligned_cols=32  Identities=28%  Similarity=0.367  Sum_probs=25.1

Q ss_pred             CCCccHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 044786          249 GLESDEYVQCGLVDMYGKCRLLRDAERVFELI  280 (340)
Q Consensus       249 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  280 (340)
                      |+.||..||++||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            67777788888888888888888887777776

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.01  E-value=8.8e-07  Score=73.32  Aligned_cols=92  Identities=8%  Similarity=-0.036  Sum_probs=51.8

Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhc
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCR  195 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~  195 (340)
                      .|..+...+...|+.++|...|+...+.... +...|+.+...+...|++++|...|+...+  | +..+|..+..++..
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~  144 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYY  144 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            4555555555566666666666555555432 445555666666666666666666665532  2 33445555555556


Q ss_pred             cCchhHHHHHHHHHhh
Q 044786          196 EGHFHQVFNDFKEMGR  211 (340)
Q Consensus       196 ~~~~~~a~~~~~~m~~  211 (340)
                      .|++++|++.|++..+
T Consensus       145 ~g~~~eA~~~~~~al~  160 (296)
T PRK11189        145 GGRYELAQDDLLAFYQ  160 (296)
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            6666666666666554

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

Probab=99.01  E-value=3.3e-07  Score=69.55  Aligned_cols=199  Identities=10%  Similarity=-0.007  Sum_probs=140.6

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      .--|.-+|...|++..|.+-+++.++.+      +.+..++..+...|-+.|..+.|.+-|+...+.... +..+.|...
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D------Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG  110 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD------PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYG  110 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhh
Confidence            4446667888888888888888888874      445557777778888888888888888888777644 566777777


Q ss_pred             HHHHhhcCHHHHHHHHHHccc-C----ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCc
Q 044786          160 NFYGKFRCLEDADFVFSQLKR-H----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDD  233 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~-~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~  233 (340)
                      -.+|..|++++|...|++... |    -..+|..+.-+..+.|+++.|.+.|++-.+..  |+ ..+...+.....+.|+
T Consensus       111 ~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~~~~~~~  188 (250)
T COG3063         111 AFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGD  188 (250)
T ss_pred             HHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhccc
Confidence            778888888888888887653 3    24467777777778888888888888877642  32 3455666677777777


Q ss_pred             hhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHH
Q 044786          234 DGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASW  289 (340)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~  289 (340)
                      +.+ +..+++.....+. ++..+....|+.--..|+-+.+.+.=..+.. -|...-|
T Consensus       189 y~~-Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e~  243 (250)
T COG3063         189 YAP-ARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEEY  243 (250)
T ss_pred             chH-HHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHH
Confidence            766 6666666655543 7777777777777777777777766555543 2444433

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

Probab=98.95  E-value=8.8e-07  Score=67.27  Aligned_cols=190  Identities=11%  Similarity=-0.063  Sum_probs=100.9

Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcc
Q 044786           14 TCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDV   90 (340)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~   90 (340)
                      ..+.-.|.+.|+...|.+-++...+.  -+-+..+|..+-..|.+.|..+.|.+.|+...   ..+-.+.|.....+|..
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhC
Confidence            34444555666666666666666654  12234455555566666666666666666544   23444556666666666


Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      |++++|.+.|++.....  .  ..-...+|..+.-+..+.|+.+.|...|++..+.... ...+...+.....+.|++..
T Consensus       117 g~~~eA~q~F~~Al~~P--~--Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         117 GRPEEAMQQFERALADP--A--YGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             CChHHHHHHHHHHHhCC--C--CCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchH
Confidence            66666666666665542  1  1223445555555556666666666666666555433 23344455555555566655


Q ss_pred             HHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          171 ADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       171 a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      |...++.....   +..+.-..|+.--..|+.+.+-+.=..+.
T Consensus       192 Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         192 ARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            55555554433   22233333444444555554444444443

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.92  E-value=2.9e-06  Score=72.55  Aligned_cols=279  Identities=12%  Similarity=0.018  Sum_probs=206.4

Q ss_pred             CCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHH
Q 044786            6 LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAV   82 (340)
Q Consensus         6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~   82 (340)
                      +.-+++....-.+-|...+++.+..++.+.....  .++....+-.=|..+...|+..+-..+=.++.+   ....+|-+
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~a  317 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEK--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFA  317 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhh--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhh
Confidence            3445555556666777889999999999999987  455566666666688888887766666566653   35668999


Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-CchhHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-RNISLTGSLINF  161 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~  161 (340)
                      +.--|.-.|+..+|.+.|.+....+      +.-...|-....+++-.|..++|...|...-+.=.. .-+..|  +.--
T Consensus       318 Vg~YYl~i~k~seARry~SKat~lD------~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LY--lgme  389 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATTLD------PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLY--LGME  389 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcC------ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHH--HHHH
Confidence            9888888899999999999987764      344557888999999999999999988776554211 122233  4455


Q ss_pred             HHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhc--cc---C-CChhhHHHHHHhcccCC
Q 044786          162 YGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE--RI---K-KNSYTFSSVLKACGGVD  232 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~---~-p~~~t~~~ll~~~~~~~  232 (340)
                      |.+.+++..|.+.|.+...   .|+...+-+.-.....+.+.+|..+|+.....  .+   . ....+++.+-.+|.+.+
T Consensus       390 y~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~  469 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLN  469 (611)
T ss_pred             HHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHh
Confidence            8888999999999998753   37777888777777788999999999887631  11   1 23456888889999999


Q ss_pred             chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHH
Q 044786          233 DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGY  296 (340)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~  296 (340)
                      .+.+ +...++..... .+-+..++.++.-.|...|+++.|.+.|.+... +|+-.+-..++..+
T Consensus       470 ~~~e-AI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  470 KYEE-AIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             hHHH-HHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            9977 66666655543 245888888999999999999999999988765 57665555555543

>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=98.83  E-value=6.4e-07  Score=73.26  Aligned_cols=149  Identities=12%  Similarity=0.073  Sum_probs=73.8

Q ss_pred             HHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhccc----CCchh
Q 044786          160 NFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG----VDDDG  235 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~  235 (340)
                      ..+...|++++|.++++.-  .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..    .+.+.
T Consensus       110 ~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHH
Confidence            3444455555555555443  23344444555666666666666666666542  122 222333333211    12332


Q ss_pred             chHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHHHHHHHcCch-HHHHHHHHHH
Q 044786          236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAMLVGYIRNGLY-VEATKFLYLM  312 (340)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li~~~~~~~~~-~~a~~~~~~m  312 (340)
                      + +..+++.+.. .+.+++.+.+.+.-+....|++++|++++++....  .++.+...++......|+. +.+.+.+.++
T Consensus       185 ~-A~y~f~El~~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  185 D-AFYIFEELSD-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             H-HHHHHHHHHC-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             H-HHHHHHHHHh-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            3 5555555433 34556666666666666666666666666665442  3445555555555555655 4455566665


Q ss_pred             HHc
Q 044786          313 KAS  315 (340)
Q Consensus       313 ~~~  315 (340)
                      +..
T Consensus       263 ~~~  265 (290)
T PF04733_consen  263 KQS  265 (290)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            543

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.

>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=98.83  E-value=2.9e-07  Score=75.30  Aligned_cols=251  Identities=8%  Similarity=0.030  Sum_probs=159.3

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHH
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a   96 (340)
                      ++.+.-.|++..++.-.+ .... .-+.+.....-+.+++.-.|+.+.++.-...-..|.......+...+....+-+.+
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~-~~~~~~e~~~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSF-SPENKLERDFYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTS-TCHHHHHHHHHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCC-CchhHHHHHHHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHH
Confidence            445566788888886666 2222 11223445556678888889988777666555555655565555544433444445


Q ss_pred             HHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      +.-+++.....  .  ...+..........+...|++++|++++...      .+.......+..|.+.++++.|.+.++
T Consensus        86 l~~l~~~~~~~--~--~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   86 LEELKELLADQ--A--GESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             HHHHHHCCCTS-------CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHhc--c--ccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            44444333221  1  0123333333345667789999999887532      356677788999999999999999999


Q ss_pred             HcccCC-hhhHHHHHHHHh----ccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCC
Q 044786          177 QLKRHN-TVVWTAKIVNNC----REGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLE  251 (340)
Q Consensus       177 ~~~~~~-~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (340)
                      .|.+-+ -.+...+..++.    ..+.+.+|..+|+++.+. ..++..+.+.+..++...|++++ |..++......+ +
T Consensus       156 ~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~e-Ae~~L~~al~~~-~  232 (290)
T PF04733_consen  156 NMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEE-AEELLEEALEKD-P  232 (290)
T ss_dssp             HHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHH-HHHHHHHHCCC--C
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHH-HHHHHHHHHHhc-c
Confidence            998652 223333444333    345799999999998765 56788888999999999999988 666666554432 3


Q ss_pred             ccHHHHHHHHHHHhccCCH-HHHHHHHHHhhc
Q 044786          252 SDEYVQCGLVDMYGKCRLL-RDAERVFELIVD  282 (340)
Q Consensus       252 ~~~~~~~~li~~~~~~~~~-~~A~~~~~~~~~  282 (340)
                      -++.+...++-+....|+. +.+.+.+.+++.
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            3666777788887888887 778889988875

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.80  E-value=2.3e-06  Score=67.59  Aligned_cols=305  Identities=11%  Similarity=0.014  Sum_probs=196.0

Q ss_pred             CCCCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC--Ccc
Q 044786            1 MDNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR--DFN   78 (340)
Q Consensus         1 M~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~   78 (340)
                      |...|+....-.+.+++..+.+..++..|++++..-.++  -+.+....+.|..+|.+..++..|-..++++...  ...
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er--~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~   78 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELER--SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELE   78 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHH
Confidence            566777777777899999999999999999999887766  2337788888889999999999999999998742  222


Q ss_pred             cHHH-HHHHHHcccChhHHHHHHHHHHHhh----------------cC-C---------ccccchHHHHHHHHHHhhhcc
Q 044786           79 SWAV-MIVGYVDVADYQECITLFAEMMKRK----------------KG-H---------MLLVFPAWIIVCVLKACVCTM  131 (340)
Q Consensus        79 ~~~~-li~~~~~~g~~~~a~~~~~~m~~~~----------------~~-~---------~~~~~~~~~~~~ll~~~~~~~  131 (340)
                      -|.. -..++-+.+.+..|+++...|....                .+ .         .+-..+..+.+.......+.|
T Consensus        79 qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykeg  158 (459)
T KOG4340|consen   79 QYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEG  158 (459)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccc
Confidence            2221 1233445556666666655554311                00 0         000123444455555566889


Q ss_pred             chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----------------Ch------h--hH
Q 044786          132 NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH-----------------NT------V--VW  186 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------~~------~--~~  186 (340)
                      +++.|.+-|+...+.+--.....|+..+. ..+.|+++.|.+...++.++                 |+      .  .-
T Consensus       159 qyEaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~  237 (459)
T KOG4340|consen  159 QYEAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQ  237 (459)
T ss_pred             cHHHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHH
Confidence            99999999998876543334557776554 44668899999988887643                 11      1  13


Q ss_pred             HHHHHHH-------hccCchhHHHHHHHHHhhc-ccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHH
Q 044786          187 TAKIVNN-------CREGHFHQVFNDFKEMGRE-RIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQC  258 (340)
Q Consensus       187 ~~li~~~-------~~~~~~~~a~~~~~~m~~~-~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (340)
                      +.++.++       .+.|+++.|.+-+-+|.-+ .-..|++|.+.+.-.-.. +++.+ ...-++.+...+ +-...||.
T Consensus       238 Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~-~~p~~-g~~KLqFLL~~n-PfP~ETFA  314 (459)
T KOG4340|consen  238 SALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMD-ARPTE-GFEKLQFLLQQN-PFPPETFA  314 (459)
T ss_pred             HHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhccc-CCccc-cHHHHHHHHhcC-CCChHHHH
Confidence            3444443       3678899998888888533 234577887665433222 22323 333344444432 23567888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhcC----CcHHHHHHHHHHHH-HcCchHHHHHHHHHH
Q 044786          259 GLVDMYGKCRLLRDAERVFELIVDK----KNIASWNAMLVGYI-RNGLYVEATKFLYLM  312 (340)
Q Consensus       259 ~li~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~li~~~~-~~~~~~~a~~~~~~m  312 (340)
                      .++-.||+..-++.|-+++.+-...    -+...|+ |+.++. -.-..++|++-++.+
T Consensus       315 NlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  315 NLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             HHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHH
Confidence            9999999999999999998765431    2444454 344444 345678887766665

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.77  E-value=4.1e-05  Score=66.83  Aligned_cols=300  Identities=10%  Similarity=0.016  Sum_probs=152.3

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHH
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a   96 (340)
                      ++...+.|+.......|+.....-.+.-....|...+......+-++.+.+++++..+-++..-+-.|..++..+++++|
T Consensus       109 lq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~ea  188 (835)
T KOG2047|consen  109 LQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEA  188 (835)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHH
Confidence            34444555566666666665554222223345656666666666677777777777766666666677777777777777


Q ss_pred             HHHHHHHHHhhcCCcc-ccchHHHHHHHHHHhhhccch---hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHH
Q 044786           97 ITLFAEMMKRKKGHML-LVFPAWIIVCVLKACVCTMNM---ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDAD  172 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (340)
                      .+.+........-+.. -+.+...|..+....++.-+.   -.+.++++.+...-...-...|++|.+.|.+.|++++|.
T Consensus       189 a~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekar  268 (835)
T KOG2047|consen  189 AQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKAR  268 (835)
T ss_pred             HHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            7777666543200000 022333444443333332221   112222222221111111235566666666666666666


Q ss_pred             HHHHHcccC--ChhhHHHHHHHH---------------------------------------------------------
Q 044786          173 FVFSQLKRH--NTVVWTAKIVNN---------------------------------------------------------  193 (340)
Q Consensus       173 ~~~~~~~~~--~~~~~~~li~~~---------------------------------------------------------  193 (340)
                      .+|++....  .+.-|+.+..+|                                                         
T Consensus       269 Dvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~n  348 (835)
T KOG2047|consen  269 DVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHN  348 (835)
T ss_pred             HHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCcc
Confidence            666553321  000011111111                                                         


Q ss_pred             ---------hccCchhHHHHHHHHHhhcccCCC------hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCcc---HH
Q 044786          194 ---------CREGHFHQVFNDFKEMGRERIKKN------SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESD---EY  255 (340)
Q Consensus       194 ---------~~~~~~~~a~~~~~~m~~~~~~p~------~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  255 (340)
                               +..|+..+-...|.+.++. +.|-      ...|..+..-|-..|+++. +..+++...+...+--   ..
T Consensus       349 V~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~-aRvifeka~~V~y~~v~dLa~  426 (835)
T KOG2047|consen  349 VEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDD-ARVIFEKATKVPYKTVEDLAE  426 (835)
T ss_pred             HHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHH-HHHHHHHhhcCCccchHHHHH
Confidence                     1124445555555555442 2221      1234555555666777755 7777766665544332   34


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhcCC--------------------cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          256 VQCGLVDMYGKCRLLRDAERVFELIVDKK--------------------NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       256 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +|..-.++-.+..+++.|.++.+....-|                    +...|..++.---..|-++....+|+++.+.
T Consensus       427 vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidL  506 (835)
T KOG2047|consen  427 VWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDL  506 (835)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            55555555566667777777776654311                    2334555555555566777777777777666


Q ss_pred             CCc
Q 044786          316 GIQ  318 (340)
Q Consensus       316 g~~  318 (340)
                      .+.
T Consensus       507 ria  509 (835)
T KOG2047|consen  507 RIA  509 (835)
T ss_pred             hcC
Confidence            544

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

Probab=98.77  E-value=2.2e-05  Score=67.21  Aligned_cols=253  Identities=11%  Similarity=0.028  Sum_probs=157.8

Q ss_pred             HhhhccchhhHHHHHHHHHhhcCCCCCHHHHHH---HHHHHHhcCChhHHHHHHhhcCcCCcc---cHHHHHHHHHcccC
Q 044786           19 ECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNR---LLLMHVSCGQLDTARQLFDEMPLRDFN---SWAVMIVGYVDVAD   92 (340)
Q Consensus        19 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~g~   92 (340)
                      .+...|++++|.+.++.....  .+.+...+..   ........+..+.+.+.++.....+..   ....+...+...|+
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCC
Confidence            446789999999999999876  3445545442   222223356667777777653333332   23344567888999


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-Cch--hHHHHHHHHHHhhcCHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-RNI--SLTGSLINFYGKFRCLE  169 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~  169 (340)
                      +++|.+.+++..+..      +.+...+..+...+...|++++|...++........ |+.  ..|..+...+...|+++
T Consensus       130 ~~~A~~~~~~al~~~------p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~  203 (355)
T cd05804         130 YDRAEEAARRALELN------PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYE  203 (355)
T ss_pred             HHHHHHHHHHHHhhC------CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHH
Confidence            999999999999984      455677888899999999999999999988876432 232  34557888999999999


Q ss_pred             HHHHHHHHcccCCh--hhH----H--HHHHHHhccCchhHHHHHHHHHhhc---ccCC--ChhhHHHHHHhcccCCchhc
Q 044786          170 DADFVFSQLKRHNT--VVW----T--AKIVNNCREGHFHQVFNDFKEMGRE---RIKK--NSYTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       170 ~a~~~~~~~~~~~~--~~~----~--~li~~~~~~~~~~~a~~~~~~m~~~---~~~p--~~~t~~~ll~~~~~~~~~~~  236 (340)
                      +|..++++......  ...    +  .++.-+...|....+.+ ++.+...   ....  ..........++...|+..+
T Consensus       204 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~-w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  282 (355)
T cd05804         204 AALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDR-WEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDA  282 (355)
T ss_pred             HHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHH-HHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHH
Confidence            99999999753322  111    1  22222233343222222 2222211   1111  11222245566778888766


Q ss_pred             hHHHHHHHHHHhCCC------ccHHHHHHHHH--HHhccCCHHHHHHHHHHhh
Q 044786          237 CGRQMHANIVKIGLE------SDEYVQCGLVD--MYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       237 ~~~~~~~~~~~~~~~------~~~~~~~~li~--~~~~~~~~~~A~~~~~~~~  281 (340)
                       +..+++.+......      ....+-..++.  ++...|+.++|.+.+....
T Consensus       283 -a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al  334 (355)
T cd05804         283 -LDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVR  334 (355)
T ss_pred             -HHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             77777666553322      11112222333  4458899999999998775

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.

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

Probab=98.74  E-value=1.3e-05  Score=74.40  Aligned_cols=262  Identities=12%  Similarity=0.059  Sum_probs=164.0

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL-LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYV   88 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~   88 (340)
                      ...+..|+..+...+++++|.++.+.....   .|+. ..|-.+...+.+.++.+++..+             .++..+.
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~---~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~   94 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKE---HKKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFS   94 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CCcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhcc
Confidence            345566666666677777777777655443   3332 2222222344455554333332             3333444


Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCH
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      ...++.-+..+...|...       .-+...+..+..+|-+.|+.+++.++|+++++.. .-|+.+.|.+...|... ++
T Consensus        95 ~~~~~~~ve~~~~~i~~~-------~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL  165 (906)
T PRK14720         95 QNLKWAIVEHICDKILLY-------GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DK  165 (906)
T ss_pred             cccchhHHHHHHHHHHhh-------hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hH
Confidence            444554444444455444       3445688888899999999999999999999988 34888899999999998 99


Q ss_pred             HHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHh
Q 044786          169 EDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                      ++|.+++.+..           ..|...+++.++.++|.++...  .|+...+                ...+.+.+...
T Consensus       166 ~KA~~m~~KAV-----------~~~i~~kq~~~~~e~W~k~~~~--~~~d~d~----------------f~~i~~ki~~~  216 (906)
T PRK14720        166 EKAITYLKKAI-----------YRFIKKKQYVGIEEIWSKLVHY--NSDDFDF----------------FLRIERKVLGH  216 (906)
T ss_pred             HHHHHHHHHHH-----------HHHHhhhcchHHHHHHHHHHhc--CcccchH----------------HHHHHHHHHhh
Confidence            99999887653           3367777899999999999874  3443322                22222222222


Q ss_pred             -CCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHH-HHHcCCccchhHH
Q 044786          249 -GLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYL-MKASGIQIQESLI  324 (340)
Q Consensus       249 -~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~-m~~~g~~~~~~t~  324 (340)
                       |..--..++-.+-..|-..++++++..+++.+.+  +.|.....-++.+|.  +.+.. ...|++ ++-.|+.-+..++
T Consensus       217 ~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~--~kY~~-~~~~ee~l~~s~l~~~~~~~  293 (906)
T PRK14720        217 REFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK--EKYKD-HSLLEDYLKMSDIGNNRKPV  293 (906)
T ss_pred             hccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH--HHccC-cchHHHHHHHhccccCCccH
Confidence             3334455666777888899999999999999987  346666777777776  33333 223333 3334555444444


Q ss_pred             HHHH
Q 044786          325 NDLR  328 (340)
Q Consensus       325 ~~ll  328 (340)
                      ..-|
T Consensus       294 ~~~i  297 (906)
T PRK14720        294 KDCI  297 (906)
T ss_pred             HHHH
Confidence            4333

>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=98.70  E-value=2.3e-05  Score=69.12  Aligned_cols=256  Identities=9%  Similarity=-0.025  Sum_probs=174.2

Q ss_pred             HHHHHhcCChhHHHHHHhhcCcC--Ccc-cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhh-
Q 044786           53 LLMHVSCGQLDTARQLFDEMPLR--DFN-SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV-  128 (340)
Q Consensus        53 i~~~~~~~~~~~a~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~-  128 (340)
                      ...+...|++++|++.++.-...  |.. ........+.+.|+.++|..+|..++..       .|+...|...+..+. 
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r-------NPdn~~Yy~~L~~~~g   83 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR-------NPDNYDYYRGLEEALG   83 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-------CCCcHHHHHHHHHHHh
Confidence            34567889999999999876643  333 4566778899999999999999999999       577777776666655 


Q ss_pred             ---h--ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH-HHHHHHHHcccCCh-hhHHHHHHHHhccCchhH
Q 044786          129 ---C--TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE-DADFVFSQLKRHNT-VVWTAKIVNNCREGHFHQ  201 (340)
Q Consensus       129 ---~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~  201 (340)
                         .  ..+.+...++|+++...-+.  ......+.-.+..-..+. .+...+..+..+++ .+|+.+-..|....+..-
T Consensus        84 ~~~~~~~~~~~~~~~~y~~l~~~yp~--s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~  161 (517)
T PF12569_consen   84 LQLQLSDEDVEKLLELYDELAEKYPR--SDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAI  161 (517)
T ss_pred             hhcccccccHHHHHHHHHHHHHhCcc--ccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHH
Confidence               1  22567778888888666422  222222211122222222 33444555555554 456666666665555555


Q ss_pred             HHHHHHHHhhc----c----------cCCCh--hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHh
Q 044786          202 VFNDFKEMGRE----R----------IKKNS--YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYG  265 (340)
Q Consensus       202 a~~~~~~m~~~----~----------~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  265 (340)
                      ...++......    +          -.|+.  .++.-+-..|-..|++++ |..+.+..+... +-.+..|..-...|-
T Consensus       162 i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~-Al~~Id~aI~ht-Pt~~ely~~KarilK  239 (517)
T PF12569_consen  162 IESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEK-ALEYIDKAIEHT-PTLVELYMTKARILK  239 (517)
T ss_pred             HHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHH-HHHHHHHHHhcC-CCcHHHHHHHHHHHH
Confidence            55566555432    1          12333  244555666788999977 777777666653 224778888999999


Q ss_pred             ccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCcc
Q 044786          266 KCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQI  319 (340)
Q Consensus       266 ~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  319 (340)
                      +.|++.+|.+.++..+.  ..|...=+....-+.+.|++++|.+++......+..|
T Consensus       240 h~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  240 HAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence            99999999999999886  3577777778888899999999999999887776543

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 [], [].

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.69  E-value=3.1e-05  Score=64.12  Aligned_cols=262  Identities=9%  Similarity=0.015  Sum_probs=186.0

Q ss_pred             CCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHH
Q 044786            6 LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLL-FLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWA   81 (340)
Q Consensus         6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~   81 (340)
                      ++-+......+.+.+...|+.+.|...|+.....   .|+.. ....-.-.+.+.|+.+....+...+...   ....|-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~---dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wf  304 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA---NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWF  304 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC---ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhh
Confidence            4566777888999999999999999999998855   44332 1112222346778888877777776633   344455


Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      .-........++..|+.+-++.++.+      +.+...|..=...+.+.++.++|.-.|+......+. +...|..|+.+
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~------~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~-rL~~Y~GL~hs  377 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSE------PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPY-RLEIYRGLFHS  377 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccC------cccchHHHhccHHHHhccchHHHHHHHHHHHhcchh-hHHHHHHHHHH
Confidence            55556667788999999998888763      344455655567778889999999999988877533 78899999999


Q ss_pred             HHhhcCHHHHHHHHHHcc---cCChhhHHHHH-HHHhc-cCchhHHHHHHHHHhhcccCCCh-hhHHHHHHhcccCCchh
Q 044786          162 YGKFRCLEDADFVFSQLK---RHNTVVWTAKI-VNNCR-EGHFHQVFNDFKEMGRERIKKNS-YTFSSVLKACGGVDDDG  235 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~---~~~~~~~~~li-~~~~~-~~~~~~a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~  235 (340)
                      |...|++.+|..+-+...   ..+..+.+.+. ..+.. ..--++|..++++-..  +.|+. ...+.+...|...|..+
T Consensus       378 YLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~  455 (564)
T KOG1174|consen  378 YLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTK  455 (564)
T ss_pred             HHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccc
Confidence            999999999877665533   22444444332 22221 2234788888877665  46763 34556666677788887


Q ss_pred             chHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      + +..+++....  ..||...-+.|.+.+...+.+.+|.+.|.....
T Consensus       456 D-~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  456 D-IIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             h-HHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            7 5556555443  468899999999999999999999999987764

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.69  E-value=4.2e-06  Score=70.45  Aligned_cols=217  Identities=12%  Similarity=0.001  Sum_probs=162.5

Q ss_pred             HHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc
Q 044786           56 HVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN  132 (340)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (340)
                      +.-.|+.-.|.+-|+....-   +...|--+...|....+.++..+.|++....+      +-+..+|..=.....-.++
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld------p~n~dvYyHRgQm~flL~q  409 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD------PENPDVYYHRGQMRFLLQQ  409 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC------CCCCchhHhHHHHHHHHHH
Confidence            34457888888888877632   33347777788999999999999999998875      5566677777777777889


Q ss_pred             hhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHH
Q 044786          133 MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       133 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                      +++|..=|+...+.... +...|-.+.-+..+.++++++...|++..++   .+..|+.....+...+++++|.+.|+..
T Consensus       410 ~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  410 YEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            99999999998888654 6777888888888999999999999998764   5678999999999999999999999988


Q ss_pred             hhc-----ccCCChhhH-HHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          210 GRE-----RIKKNSYTF-SSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       210 ~~~-----~~~p~~~t~-~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      .+.     ++..+..++ +-.+-.+.-.+++.. +..+++...+.. +-....|.+|...-.+.|++++|.++|++..
T Consensus       489 i~LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~-a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  489 IELEPREHLIIVNAAPLVHKALLVLQWKEDINQ-AENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HhhccccccccccchhhhhhhHhhhchhhhHHH-HHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            653     111122222 111112223366644 667766665533 2255788999999999999999999999865

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.67  E-value=4.3e-08  Score=52.47  Aligned_cols=35  Identities=23%  Similarity=0.361  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch
Q 044786          287 ASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE  321 (340)
Q Consensus       287 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  321 (340)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999984

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.66  E-value=0.00017  Score=63.14  Aligned_cols=311  Identities=12%  Similarity=0.044  Sum_probs=177.9

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ...|+.+--.+....++++|++.|......  -+.|...+..+--.-++.|+++..........+   .....|-.+..+
T Consensus        75 ~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs  152 (700)
T KOG1156|consen   75 HVCWHVLGLLQRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVA  152 (700)
T ss_pred             chhHHHHHHHHhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            344555555555667788888888877765  234566666666666666666666655554442   244467888888


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH------hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHH
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA------CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLIN  160 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  160 (340)
                      +.-.|+...|..+.++..+... -   .|+...+......      ....|.++.|.+.+..-...- ......-.+-.+
T Consensus       153 ~~L~g~y~~A~~il~ef~~t~~-~---~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i-~Dkla~~e~ka~  227 (700)
T KOG1156|consen  153 QHLLGEYKMALEILEEFEKTQN-T---SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQI-VDKLAFEETKAD  227 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhc-c---CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHH-HHHHHHhhhHHH
Confidence            8888899999998888887631 1   3555544433332      334556666665554333221 111222234556


Q ss_pred             HHHhhcCHHHHHHHHHHcccC--ChhhHH-HHHHHHhc-cCch----------------------------------hHH
Q 044786          161 FYGKFRCLEDADFVFSQLKRH--NTVVWT-AKIVNNCR-EGHF----------------------------------HQV  202 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~--~~~~~~-~li~~~~~-~~~~----------------------------------~~a  202 (340)
                      .+.+.+++++|..++..+..+  |..-|+ .+..++.+ .+..                                  +..
T Consensus       228 l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~v  307 (700)
T KOG1156|consen  228 LLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIV  307 (700)
T ss_pred             HHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHH
Confidence            778888899998888887755  333333 33333321 1111                                  122


Q ss_pred             HHHHHHHhhcccCCChhhHHHHHHhcccCCc---hhchHHHHHHHHHHhCC----------CccHHHH--HHHHHHHhcc
Q 044786          203 FNDFKEMGRERIKKNSYTFSSVLKACGGVDD---DGNCGRQMHANIVKIGL----------ESDEYVQ--CGLVDMYGKC  267 (340)
Q Consensus       203 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~---~~~~~~~~~~~~~~~~~----------~~~~~~~--~~li~~~~~~  267 (340)
                      -.+++.+.+.|+++-..   .+..-|-....   .++.+..+...+...|.          +|++..|  -.++..|-+.
T Consensus       308 dkyL~~~l~Kg~p~vf~---dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~  384 (700)
T KOG1156|consen  308 DKYLRPLLSKGVPSVFK---DLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKL  384 (700)
T ss_pred             HHHHHHHhhcCCCchhh---hhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHc
Confidence            23333344445443222   22222211111   11112222222222211          4555544  4567778889


Q ss_pred             CCHHHHHHHHHHhhcC-CcH-HHHHHHHHHHHHcCchHHHHHHHHHHHHcCC---ccchhHHHHHHHH
Q 044786          268 RLLRDAERVFELIVDK-KNI-ASWNAMLVGYIRNGLYVEATKFLYLMKASGI---QIQESLINDLRIA  330 (340)
Q Consensus       268 ~~~~~A~~~~~~~~~~-~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~---~~~~~t~~~ll~a  330 (340)
                      |+++.|...++...+. |+. .-|-.-.+.+...|+.++|..++++.++.+.   -.|..|-..+|+|
T Consensus       385 g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrA  452 (700)
T KOG1156|consen  385 GDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRA  452 (700)
T ss_pred             ccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHc
Confidence            9999999999998864 543 3455556788999999999999999887653   3455555555554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.63  E-value=5.1e-06  Score=66.55  Aligned_cols=177  Identities=12%  Similarity=0.016  Sum_probs=115.5

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH---HHHHHHHHHHHhcCChhHHHHHHhhcCc--C-Ccc---c
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL---LFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFN---S   79 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~---~   79 (340)
                      .+..+......+...|+++.|...|+.+...  .+.+.   ..+..+..++.+.|++++|...++.+.+  | +..   +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            3445666777777888888888888888765  22222   4566777788888888888888888763  2 222   2


Q ss_pred             HHHHHHHHHcc--------cChhHHHHHHHHHHHhhcCCccccchHH-HHHHHHHHhhhccchhhHHHHHHHHHHcCCCC
Q 044786           80 WAVMIVGYVDV--------ADYQECITLFAEMMKRKKGHMLLVFPAW-IIVCVLKACVCTMNMELGKQVHGLLFKLGSSR  150 (340)
Q Consensus        80 ~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  150 (340)
                      +..+..++...        |++++|.+.|+.+...       .|+.. ....+.....    ....      .       
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-------~p~~~~~~~a~~~~~~----~~~~------~-------  165 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR-------YPNSEYAPDAKKRMDY----LRNR------L-------  165 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH-------CCCChhHHHHHHHHHH----HHHH------H-------
Confidence            33444444443        6778888888888877       34332 2211111100    0000      0       


Q ss_pred             chhHHHHHHHHHHhhcCHHHHHHHHHHcccC------ChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          151 NISLTGSLINFYGKFRCLEDADFVFSQLKRH------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                       ......+...|.+.|++++|...++...+.      ....+..+..++...|++++|..+++.+...
T Consensus       166 -~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       166 -AGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             -HHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             001124567788999999999999887532      2357888999999999999999999888764

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).

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.63  E-value=0.00016  Score=70.03  Aligned_cols=301  Identities=10%  Similarity=0.003  Sum_probs=187.6

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCC-----CCCH--HHHHHHHHHHHhcCChhHHHHHHhhcCc--C--Cc----cc
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNI-----KPTL--LFLNRLLLMHVSCGQLDTARQLFDEMPL--R--DF----NS   79 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~-----~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~--~--~~----~~   79 (340)
                      .....+...|+++++..+++.......-     .+..  .....+-..+...|++++|...++....  +  +.    ..
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            3344456778999999999887653111     1111  1222233455678999999999887542  2  21    13


Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc----CCC--C-ch
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL----GSS--R-NI  152 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~  152 (340)
                      .+.+...+...|++++|...+.+............+...++..+...+...|+++.|...+++....    +..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            4555666778999999999999887652111101222345666777888999999999998876543    221  1 22


Q ss_pred             hHHHHHHHHHHhhcCHHHHHHHHHHcccC--------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhH--
Q 044786          153 SLTGSLINFYGKFRCLEDADFVFSQLKRH--------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTF--  221 (340)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~--  221 (340)
                      ..+..+...+...|++++|...+.+....        ....+..+...+...|++++|...+.+.....-.. ....+  
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            34455666778889999999988876421        12334556667778999999999998875421111 11111  


Q ss_pred             ---HHHHHhcccCCchhchHHHHHHHHHHhCCCcc---HHHHHHHHHHHhccCCHHHHHHHHHHhhcC----C----cHH
Q 044786          222 ---SSVLKACGGVDDDGNCGRQMHANIVKIGLESD---EYVQCGLVDMYGKCRLLRDAERVFELIVDK----K----NIA  287 (340)
Q Consensus       222 ---~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~----~~~  287 (340)
                         ...+..+...|+.+. +..+............   ...+..+..++...|+.++|...+++....    +    ...
T Consensus       654 ~~~~~~~~~~~~~g~~~~-A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~  732 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEA-AANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNR  732 (903)
T ss_pred             HHHHHHHHHHHHCCCHHH-HHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHH
Confidence               111233344666544 5555443322111111   112346677788999999999999887651    1    223


Q ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          288 SWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       288 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      +...+..++.+.|+.++|...+.+..+..
T Consensus       733 ~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        733 NLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            56666778889999999999999887654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.62  E-value=7.9e-06  Score=72.07  Aligned_cols=232  Identities=9%  Similarity=0.055  Sum_probs=174.9

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHH
Q 044786           43 KPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus        43 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      +|--..-..+...+...|-...|..+|+++     ..|.-.|.+|...|+..+|..+..+-.+.       +|+...|..
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek-------~~d~~lyc~  462 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK-------DPDPRLYCL  462 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC-------CCcchhHHH
Confidence            343444456667788889999999999987     47888999999999999999999998886       799999999


Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCch
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHF  199 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~  199 (340)
                      +.+......-++.|.++.+.....       .-..+.......++++++.+.|+.-.+-   -..+|-...-+..+.+++
T Consensus       463 LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhh
Confidence            999988888889998887754322       1111222233468899999988875533   455777777788889999


Q ss_pred             hHHHHHHHHHhhcccCCCh-hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHH
Q 044786          200 HQVFNDFKEMGRERIKKNS-YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFE  278 (340)
Q Consensus       200 ~~a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  278 (340)
                      +.|.+.|..-+.  ..||. ..|+.+-.+|.+.++..+ +...+....+.+ .-+...|...+....+.|.+++|.+.+.
T Consensus       536 q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~r-a~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~  611 (777)
T KOG1128|consen  536 QAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKR-AFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYH  611 (777)
T ss_pred             HHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHH-HHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHH
Confidence            999999988876  46764 568999999999998877 667777777766 5567778888888889999999999988


Q ss_pred             Hhhc----CCcHHHHHHHHHHHH
Q 044786          279 LIVD----KKNIASWNAMLVGYI  297 (340)
Q Consensus       279 ~~~~----~~~~~~~~~li~~~~  297 (340)
                      ++..    ..|......++....
T Consensus       612 rll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  612 RLLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             HHHHhhhhcccchhhHHHHHHHH
Confidence            8865    124444444444444

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.61  E-value=2.5e-05  Score=73.74  Aligned_cols=217  Identities=9%  Similarity=0.043  Sum_probs=100.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcC--------CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLR--------DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP  116 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  116 (340)
                      +...|-.-|..+...++.++|.+++++....        -...|.++++.-...|.-+...++|++..+.       --.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy-------cd~ 1529 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY-------CDA 1529 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh-------cch
Confidence            3444555555555555555555555554411        1124555555444445555555555555544       222


Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----ChhhHHHHHH
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH-----NTVVWTAKIV  191 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~  191 (340)
                      -.+|..|...|.+.+..++|.++++.|.+.-- ....+|...+..+.+..+-+.|..++.+..+.     .+....-.+.
T Consensus      1530 ~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAq 1608 (1710)
T KOG1070|consen 1530 YTVHLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQ 1608 (1710)
T ss_pred             HHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHH
Confidence            33445555555555555555555555544321 23444555555555555555555555443311     2222233333


Q ss_pred             HHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccH--HHHHHHHHHHhccCC
Q 044786          192 NNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDE--YVQCGLVDMYGKCRL  269 (340)
Q Consensus       192 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~  269 (340)
                      .-.+.|+.+.+..+|+.....-.+ -...|+..+..-.+.|+... ++.+|+.....++.|-.  ..|.-.++.--+.|+
T Consensus      1609 LEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~-vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gd 1686 (1710)
T KOG1070|consen 1609 LEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKY-VRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGD 1686 (1710)
T ss_pred             HHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHH-HHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCc
Confidence            334455555555555555443211 12345555555555555433 55555555555554422  233444443334444


Q ss_pred             HH
Q 044786          270 LR  271 (340)
Q Consensus       270 ~~  271 (340)
                      -.
T Consensus      1687 e~ 1688 (1710)
T KOG1070|consen 1687 EK 1688 (1710)
T ss_pred             hh
Confidence            33

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.60  E-value=8.6e-08  Score=50.89  Aligned_cols=33  Identities=24%  Similarity=0.318  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHHcCCcc
Q 044786          287 ASWNAMLVGYIRNGLYVEATKFLYLMKASGIQI  319 (340)
Q Consensus       287 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  319 (340)
                      .+|+.+|.+|++.|+++.|.++|++|++.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            589999999999999999999999999999988

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

Probab=98.58  E-value=1.3e-05  Score=62.01  Aligned_cols=153  Identities=5%  Similarity=-0.020  Sum_probs=114.6

Q ss_pred             HHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc
Q 044786           53 LLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN  132 (340)
Q Consensus        53 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (340)
                      +..|...|+++.+....+.+..+. .       .+...++.+++...+++....+      +.+...|..+...+...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~-~-------~~~~~~~~~~~i~~l~~~L~~~------P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL-H-------QFASQQTPEAQLQALQDKIRAN------PQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc-c-------cccCchhHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHCCC
Confidence            346778888887766554443321 1       1223667788888888888774      6778889999999999999


Q ss_pred             hhhHHHHHHHHHHcCCCCchhHHHHHHHH-HHhhcC--HHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHH
Q 044786          133 MELGKQVHGLLFKLGSSRNISLTGSLINF-YGKFRC--LEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       133 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                      +++|...|+...+.... +...+..+..+ +...|+  .++|.+++++..+.   +..++..+...+.+.|++++|+..|
T Consensus        89 ~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         89 YDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999988888754 67777777776 467677  48999999988643   6678888889999999999999999


Q ss_pred             HHHhhcccCCChhhH
Q 044786          207 KEMGRERIKKNSYTF  221 (340)
Q Consensus       207 ~~m~~~~~~p~~~t~  221 (340)
                      +++.+.. +|+...+
T Consensus       168 ~~aL~l~-~~~~~r~  181 (198)
T PRK10370        168 QKVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHHhhC-CCCccHH
Confidence            9998753 4554443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.58  E-value=8.7e-08  Score=51.24  Aligned_cols=35  Identities=26%  Similarity=0.448  Sum_probs=32.4

Q ss_pred             hhHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh
Q 044786          184 VVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS  218 (340)
Q Consensus       184 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  218 (340)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999973

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.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.57  E-value=2.7e-05  Score=73.55  Aligned_cols=220  Identities=9%  Similarity=0.027  Sum_probs=149.2

Q ss_pred             cchHHHHHHHHHHhhhccchhhHHHHHHHHHHc-CCCC---chhHHHHHHHHHHhhcCHHHHHHHHHHcccC-C-hhhHH
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL-GSSR---NISLTGSLINFYGKFRCLEDADFVFSQLKRH-N-TVVWT  187 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~  187 (340)
                      +.++..|-..|....+.++++.|.++.++.+.. ++.-   -...|.++++.-...|.-+...++|++..+- | ...|.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~ 1534 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHL 1534 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHH
Confidence            445567777788888888888888888777643 2211   2235666777666777777778888877653 3 34577


Q ss_pred             HHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCC-ccHHHHHHHHHHHhc
Q 044786          188 AKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLE-SDEYVQCGLVDMYGK  266 (340)
Q Consensus       188 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~  266 (340)
                      .|...|.+.+.+++|.++++.|.++ +.-....|...+..+.+..+- +++..++....+.-.+ -......-.++.-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~-~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEA-EAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHH-HHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            7888888888888888888888765 223445666777777776664 4466666665543211 134445555666678


Q ss_pred             cCCHHHHHHHHHHhhcC--CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch--hHHHHHHHHhhhcC
Q 044786          267 CRLLRDAERVFELIVDK--KNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE--SLINDLRIACSSIS  335 (340)
Q Consensus       267 ~~~~~~A~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~t~~~ll~a~~~~g  335 (340)
                      .|+.+++..+|+.....  .-...|+.+|+.-.++|+.+.+..+|++..+.++.|-.  +.|.-.|.-=-+.|
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~G 1685 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHG 1685 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcC
Confidence            88888888888887752  35678888888888888888888888888888877654  34454444333333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.55  E-value=1.8e-05  Score=63.40  Aligned_cols=185  Identities=10%  Similarity=0.004  Sum_probs=117.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCc------ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDF------NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW  118 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  118 (340)
                      ....+-.+...+.+.|++++|...|+++...++      .++..+..++...|++++|...++++.+...+-   .....
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~---~~~~~  108 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNH---PDADY  108 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC---CchHH
Confidence            455666777778888999999998887763222      245667778888899999999999888773111   01112


Q ss_pred             HHHHHHHHhhhc--------cchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHH
Q 044786          119 IIVCVLKACVCT--------MNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKI  190 (340)
Q Consensus       119 ~~~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li  190 (340)
                      ++..+..++.+.        |+.+.|.+.++.+.+.... +...+..+...    +......          ....-.+.
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~----~~~~~~~----------~~~~~~~a  173 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRM----DYLRNRL----------AGKELYVA  173 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHH----HHHHHHH----------HHHHHHHH
Confidence            344444555443        6778888888877766433 12222111111    0000000          00112455


Q ss_pred             HHHhccCchhHHHHHHHHHhhccc-CC-ChhhHHHHHHhcccCCchhchHHHHHHHHHHh
Q 044786          191 VNNCREGHFHQVFNDFKEMGRERI-KK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       191 ~~~~~~~~~~~a~~~~~~m~~~~~-~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                      ..+.+.|++++|...+++..+... .| ....+..+..++.+.|+.++ +..+++.+...
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~-A~~~~~~l~~~  232 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDL-AQDAAAVLGAN  232 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHH-HHHHHHHHHhh
Confidence            678899999999999999987531 12 34678899999999999977 66677766554

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).

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.53  E-value=0.00054  Score=60.17  Aligned_cols=166  Identities=13%  Similarity=0.201  Sum_probs=80.5

Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHcccCChh-------hHHHHHHHHhccCchhHHHHHHHHHhhc----------ccCC
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKRHNTV-------VWTAKIVNNCREGHFHQVFNDFKEMGRE----------RIKK  216 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~li~~~~~~~~~~~a~~~~~~m~~~----------~~~p  216 (340)
                      .|..+...|-..|+++.|..+|++..+-+-.       +|-.-...-.++.+++.|++++++....          |-.|
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~p  468 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEP  468 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCc
Confidence            3456667777788888888888887654322       3433344444566777777777665421          0011


Q ss_pred             -------ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc---CCcH
Q 044786          217 -------NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD---KKNI  286 (340)
Q Consensus       217 -------~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~  286 (340)
                             +...|+..+..--..|-++. .+.+++.+....+.....+. .....+-...-++++.+++++-..   -|++
T Consensus       469 vQ~rlhrSlkiWs~y~DleEs~gtfes-tk~vYdriidLriaTPqii~-NyAmfLEeh~yfeesFk~YErgI~LFk~p~v  546 (835)
T KOG2047|consen  469 VQARLHRSLKIWSMYADLEESLGTFES-TKAVYDRIIDLRIATPQIII-NYAMFLEEHKYFEESFKAYERGISLFKWPNV  546 (835)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccHHH-HHHHHHHHHHHhcCCHHHHH-HHHHHHHhhHHHHHHHHHHHcCCccCCCccH
Confidence                   11112222222222333322 45555555544432221111 111122233445556665555443   1333


Q ss_pred             -HHHHHHHHHHHH---cCchHHHHHHHHHHHHcCCccchh
Q 044786          287 -ASWNAMLVGYIR---NGLYVEATKFLYLMKASGIQIQES  322 (340)
Q Consensus       287 -~~~~~li~~~~~---~~~~~~a~~~~~~m~~~g~~~~~~  322 (340)
                       ..|+..+.-+.+   ....+.|..+|++..+ |.+|...
T Consensus       547 ~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~a  585 (835)
T KOG2047|consen  547 YDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHA  585 (835)
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHH
Confidence             356655554443   2345666667766665 5554443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.52  E-value=0.00028  Score=57.51  Aligned_cols=89  Identities=9%  Similarity=-0.016  Sum_probs=55.8

Q ss_pred             HHhcccCCchhchHHHHHHHHHHhCCCccHHHH-HHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHH-HHHHHcCch
Q 044786          225 LKACGGVDDDGNCGRQMHANIVKIGLESDEYVQ-CGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAML-VGYIRNGLY  302 (340)
Q Consensus       225 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li-~~~~~~~~~  302 (340)
                      .++.+..|.+.+ ++.++-.+....++ |..+| ..|.++|.++++++.|++++-.+..+.+..+.-.+| +-|.+.+++
T Consensus       400 AQAk~atgny~e-aEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eF  477 (557)
T KOG3785|consen  400 AQAKLATGNYVE-AEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEF  477 (557)
T ss_pred             HHHHHHhcChHH-HHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence            344455666655 66666555444433 33444 456677888888888888887775444555544444 456677777


Q ss_pred             HHHHHHHHHHHHc
Q 044786          303 VEATKFLYLMKAS  315 (340)
Q Consensus       303 ~~a~~~~~~m~~~  315 (340)
                      =-|.+.|+++...
T Consensus       478 yyaaKAFd~lE~l  490 (557)
T KOG3785|consen  478 YYAAKAFDELEIL  490 (557)
T ss_pred             HHHHHhhhHHHcc
Confidence            7777777777544

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.51  E-value=2.1e-06  Score=75.57  Aligned_cols=187  Identities=11%  Similarity=0.061  Sum_probs=130.0

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHccc
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVA   91 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g   91 (340)
                      .|.-+|..|+..|+..+|..+..+-.+.   +||+..|..+.+......-+++|+++++....+-   -..+.....+.+
T Consensus       426 mw~~vi~CY~~lg~~~kaeei~~q~lek---~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA---~r~~~~~~~~~~  499 (777)
T KOG1128|consen  426 MWDPVILCYLLLGQHGKAEEINRQELEK---DPDPRLYCLLGDVLHDPSLYEKAWELSNYISARA---QRSLALLILSNK  499 (777)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHhcC---CCcchhHHHhhhhccChHHHHHHHHHhhhhhHHH---HHhhccccccch
Confidence            3445555666666666666665555543   5666666666666666666666666666554331   111111122367


Q ss_pred             ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHH
Q 044786           92 DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus        92 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      ++.++.+.|+.-.+..      +....+|.....+..+.+++..+.+.|..-+...+. +...||.+-.+|.+.++-.+|
T Consensus       500 ~fs~~~~hle~sl~~n------plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra  572 (777)
T KOG1128|consen  500 DFSEADKHLERSLEIN------PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRA  572 (777)
T ss_pred             hHHHHHHHHHHHhhcC------ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHH
Confidence            8888888888777764      556678888888888888999998888888776533 566889999999999999999


Q ss_pred             HHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          172 DFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       172 ~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      ...+.+..+-   +...|.+.+......|.+++|++.+.++..
T Consensus       573 ~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  573 FRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9998887754   444577777788888999999999888764

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.51  E-value=1.9e-07  Score=49.53  Aligned_cols=34  Identities=18%  Similarity=0.277  Sum_probs=31.1

Q ss_pred             hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC
Q 044786          183 TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK  216 (340)
Q Consensus       183 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  216 (340)
                      +.+|+.+|.+|++.|+++.|..+|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3589999999999999999999999999999887

>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=98.51  E-value=5.5e-06  Score=70.19  Aligned_cols=118  Identities=12%  Similarity=0.047  Sum_probs=59.4

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFY  162 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  162 (340)
                      |+..+...++++.|+.+|+++.+.       .|+..  ..+.+.+...++..+|.+++++..+.... +......-.+.+
T Consensus       175 Ll~~l~~t~~~~~ai~lle~L~~~-------~pev~--~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fL  244 (395)
T PF09295_consen  175 LLKYLSLTQRYDEAIELLEKLRER-------DPEVA--VLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFL  244 (395)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhc-------CCcHH--HHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            334444445555555555555544       23322  23444444445555555555555443221 344444444555


Q ss_pred             HhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          163 GKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      .+.++++.|.++.+++.+  | +..+|..|..+|.+.|+++.|+..++.+.
T Consensus       245 l~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            555555666665555542  2 33455666666666666666665555553

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

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.50  E-value=2.3e-05  Score=67.45  Aligned_cols=219  Identities=8%  Similarity=0.056  Sum_probs=158.5

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHH
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a   96 (340)
                      +.+.|++..|.-.|+...+.  -+-+...|..|.......++-..|+..+++..+-   |....-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkq--dP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQ--DPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhh--ChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            45789999999999998876  3446789999999999999988899888887643   555677777889999999999


Q ss_pred             HHHHHHHHHhhcCCccccc---hHHHHHHHHHHhhhccchhhHHHHHHHH-HHcCCCCchhHHHHHHHHHHhhcCHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVF---PAWIIVCVLKACVCTMNMELGKQVHGLL-FKLGSSRNISLTGSLINFYGKFRCLEDAD  172 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (340)
                      ++.++.-+.......-..+   +...-..  +.......+....++|-++ ...+..+|+.++..|.-.|--.|++++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9998887665200000000   0000000  1222233444555555444 45555578888889999999999999999


Q ss_pred             HHHHHcc--cC-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh--hhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          173 FVFSQLK--RH-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS--YTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       173 ~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      ..|+...  +| |...||.|...++...+..+|+..|++..+  ++|..  .-|| |--+|...|.+.+++..++..+
T Consensus       451 Dcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyN-lgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  451 DCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYN-LGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehh-hhhhhhhhhhHHHHHHHHHHHH
Confidence            9999875  34 778899999999999999999999999988  56763  3344 4457889999988777776654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.47  E-value=5.4e-05  Score=60.06  Aligned_cols=272  Identities=10%  Similarity=0.029  Sum_probs=163.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHH-
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV-  123 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l-  123 (340)
                      -+.+.+.-+.+..++..|++++....++   +......+..+|-...++..|-.+++++...       .|...-|... 
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql-------~P~~~qYrlY~   84 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL-------HPELEQYRLYQ   84 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-------ChHHHHHHHHH
Confidence            3556677778888999999998877654   4456778888999999999999999999877       5665555432 


Q ss_pred             HHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHH--HHHhhcCHHHHHHHHHHcc-cCChhhHHHHHHHHhccCchh
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLIN--FYGKFRCLEDADFVFSQLK-RHNTVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~-~~~~~~~~~li~~~~~~~~~~  200 (340)
                      ...+.+.+.+..|+++...|.+.   |+...-..-+.  .....+++..+..+.++.. +.+..+.+...-...+.|+++
T Consensus        85 AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   85 AQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHH
Confidence            35566777888888888777543   12111111111  1234567777777777776 345555555554555777888


Q ss_pred             HHHHHHHHHhhc-ccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc-------------cH--------HHHH
Q 044786          201 QVFNDFKEMGRE-RIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES-------------DE--------YVQC  258 (340)
Q Consensus       201 ~a~~~~~~m~~~-~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~--------~~~~  258 (340)
                      +|.+-|+...+- |..| ...|+..+..|.+ ++... +......++..|++-             |+        ..-.
T Consensus       162 aAvqkFqaAlqvsGyqp-llAYniALaHy~~-~qyas-ALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S  238 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQP-LLAYNLALAHYSS-RQYAS-ALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHHHhhcCCCc-hhHHHHHHHHHhh-hhHHH-HHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH
Confidence            888777777654 3333 4567766655544 33334 555555566555531             11        1122


Q ss_pred             HHHH-------HHhccCCHHHHHHHHHHhhcC----CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHH
Q 044786          259 GLVD-------MYGKCRLLRDAERVFELIVDK----KNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDL  327 (340)
Q Consensus       259 ~li~-------~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  327 (340)
                      .+++       .+.+.++++.|.+-+-.|..+    .|++|...+.-.=. .+++.+..+-+.-+....- -...||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHHHH
Confidence            3333       345778888888888877542    35555544422211 2334444444444443322 345667666


Q ss_pred             HHHhhhc
Q 044786          328 RIACSSI  334 (340)
Q Consensus       328 l~a~~~~  334 (340)
                      +--||+.
T Consensus       317 LllyCKN  323 (459)
T KOG4340|consen  317 LLLYCKN  323 (459)
T ss_pred             HHHHhhh
Confidence            6666654

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

Probab=98.46  E-value=2.6e-05  Score=60.65  Aligned_cols=154  Identities=11%  Similarity=-0.000  Sum_probs=108.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH
Q 044786           50 NRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA  126 (340)
Q Consensus        50 ~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~  126 (340)
                      ..+-..+.-.|+-+....+.....   ..|....+..+....+.|++.+|+..+++.....      ++|..+|+.+.-+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~------p~d~~~~~~lgaa  143 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA------PTDWEAWNLLGAA  143 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC------CCChhhhhHHHHH
Confidence            445555666677777666666644   2244455667777888888888888888887764      6777788888888


Q ss_pred             hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc---cCChhhHHHHHHHHhccCchhHHH
Q 044786          127 CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK---RHNTVVWTAKIVNNCREGHFHQVF  203 (340)
Q Consensus       127 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~  203 (340)
                      |.+.|+.++|..-|.+..+.... ++..++.+.-.|.-.|+.+.|+.++....   ..|..+-..+.......|++++|.
T Consensus       144 ldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~  222 (257)
T COG5010         144 LDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAE  222 (257)
T ss_pred             HHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHH
Confidence            88888888888888777776543 45566777777777788888888777653   226666677777777788888887


Q ss_pred             HHHHHHh
Q 044786          204 NDFKEMG  210 (340)
Q Consensus       204 ~~~~~m~  210 (340)
                      ++...-.
T Consensus       223 ~i~~~e~  229 (257)
T COG5010         223 DIAVQEL  229 (257)
T ss_pred             hhccccc
Confidence            7765443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.44  E-value=0.00016  Score=65.20  Aligned_cols=222  Identities=12%  Similarity=0.074  Sum_probs=150.8

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-----------CCc-ccHHHHHHHH
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-----------RDF-NSWAVMIVGY   87 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----------~~~-~~~~~li~~~   87 (340)
                      |...|+.+.|.+-++.+++.       .+|..+.++|.+.+++|-|.-.+..|..           .|. ..-....-..
T Consensus       738 yvtiG~MD~AfksI~~IkS~-------~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLA  810 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIKSD-------SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLA  810 (1416)
T ss_pred             EEEeccHHHHHHHHHHHhhh-------HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHH
Confidence            56679999998888777644       7899999999999999999888888862           122 2222233334


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                      ...|..++|+.+|++-+..+              .|=+.|-..|.+++|.++-+.--+..+   ..||..-...+...++
T Consensus       811 ieLgMlEeA~~lYr~ckR~D--------------LlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~D  873 (1416)
T KOG3617|consen  811 IELGMLEEALILYRQCKRYD--------------LLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRD  873 (1416)
T ss_pred             HHHhhHHHHHHHHHHHHHHH--------------HHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhcc
Confidence            56789999999999887652              233455567889999887654333332   2355555666667788


Q ss_pred             HHHHHHHHHHcccC-----------------------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHH
Q 044786          168 LEDADFVFSQLKRH-----------------------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSV  224 (340)
Q Consensus       168 ~~~a~~~~~~~~~~-----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  224 (340)
                      .+.|++.|++...+                       |...|.=-..-.-..|+.+.|+.+|.....         |-++
T Consensus       874 i~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~  944 (1416)
T KOG3617|consen  874 IEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSM  944 (1416)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhh
Confidence            88888888765432                       222222222333346777888877776653         4567


Q ss_pred             HHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          225 LKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       225 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      +...|-.|+.++ |..+-+.      .-|....-.|.+.|-..|++.+|..+|.+..
T Consensus       945 VrI~C~qGk~~k-Aa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  945 VRIKCIQGKTDK-AARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             eeeEeeccCchH-HHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            777888888877 5555433      2355666678899999999999999987765

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.43  E-value=8.1e-06  Score=59.67  Aligned_cols=11  Identities=18%  Similarity=0.084  Sum_probs=3.9

Q ss_pred             cCchhHHHHHH
Q 044786          196 EGHFHQVFNDF  206 (340)
Q Consensus       196 ~~~~~~a~~~~  206 (340)
                      .|++++|+..|
T Consensus       105 ~g~~~eAi~~~  115 (144)
T PRK15359        105 MGEPGLAREAF  115 (144)
T ss_pred             cCCHHHHHHHH
Confidence            33333333333

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

Probab=98.43  E-value=3e-05  Score=60.34  Aligned_cols=159  Identities=9%  Similarity=0.072  Sum_probs=128.6

Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcc
Q 044786           14 TCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDV   90 (340)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~   90 (340)
                      ..+-..+...|+-+.+..+.......  .+-|....+..+....+.|++..|...|++...   +|..+|+.+.-+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~--~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA--YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc--CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            33445555666666666666665432  344666777799999999999999999998873   4777999999999999


Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      |++++|..-|.+..+..      .-+....+.+.-.+.-.|+++.|..++......+.. |..+-..+.......|++++
T Consensus       148 Gr~~~Ar~ay~qAl~L~------~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         148 GRFDEARRAYRQALELA------PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             cChhHHHHHHHHHHHhc------cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHH
Confidence            99999999999999884      456778899999999999999999999988887654 66677788889999999999


Q ss_pred             HHHHHHHcccC
Q 044786          171 ADFVFSQLKRH  181 (340)
Q Consensus       171 a~~~~~~~~~~  181 (340)
                      |+.+-..-..+
T Consensus       221 A~~i~~~e~~~  231 (257)
T COG5010         221 AEDIAVQELLS  231 (257)
T ss_pred             HHhhccccccc
Confidence            99987765544

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.42  E-value=0.0008  Score=57.07  Aligned_cols=295  Identities=9%  Similarity=0.020  Sum_probs=200.7

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CCc-ccHHHHHHHHHcccChhHHHH
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RDF-NSWAVMIVGYVDVADYQECIT   98 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~a~~   98 (340)
                      ..+++..|..+|+..... . .-+...|-.-+.+=.++..+..|..+|++...  |-+ ..|--.+..--..|+...|.+
T Consensus        85 sq~e~~RARSv~ERALdv-d-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDV-D-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhc-c-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHH
Confidence            467888899999998876 3 34667777888888899999999999988762  222 245555555666789999999


Q ss_pred             HHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786           99 LFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus        99 ~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      +|++-.+-       .|+...|.+.++.=.+-+.++.|..+|+..+-..  |++.+|-.-...=.+.|++..|..+|+..
T Consensus       163 iferW~~w-------~P~eqaW~sfI~fElRykeieraR~IYerfV~~H--P~v~~wikyarFE~k~g~~~~aR~VyerA  233 (677)
T KOG1915|consen  163 IFERWMEW-------EPDEQAWLSFIKFELRYKEIERARSIYERFVLVH--PKVSNWIKYARFEEKHGNVALARSVYERA  233 (677)
T ss_pred             HHHHHHcC-------CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheec--ccHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            99998877       7999999999999999999999999999887653  78888888888888899999999999887


Q ss_pred             ccC------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC--hhhHHHHHHhcccCCchhchHHHH-------HH
Q 044786          179 KRH------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN--SYTFSSVLKACGGVDDDGNCGRQM-------HA  243 (340)
Q Consensus       179 ~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~t~~~ll~~~~~~~~~~~~~~~~-------~~  243 (340)
                      .+.      +...++++..--.++..++.|.-+|+-..++- +.+  ...|.....-=-+-|+....-..+       ++
T Consensus       234 ie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE  312 (677)
T KOG1915|consen  234 IEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYE  312 (677)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHH
Confidence            643      23345555544456777888888888877652 222  223333332222333322111111       12


Q ss_pred             HHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-Cc---HHHHHHHHH--------HHHHcCchHHHHHHHHH
Q 044786          244 NIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-KN---IASWNAMLV--------GYIRNGLYVEATKFLYL  311 (340)
Q Consensus       244 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~---~~~~~~li~--------~~~~~~~~~~a~~~~~~  311 (340)
                      ...+. -+.|-.+|--.++.-...|+.+...++|++...+ |.   -.-|...|-        .=....+++.+.++|+.
T Consensus       313 ~~v~~-np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~  391 (677)
T KOG1915|consen  313 KEVSK-NPYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQA  391 (677)
T ss_pred             HHHHh-CCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            22222 2446777878888888889999999999988763 21   122333222        11256788888888888


Q ss_pred             HHHcCCccchhHHHHHHHH
Q 044786          312 MKASGIQIQESLINDLRIA  330 (340)
Q Consensus       312 m~~~g~~~~~~t~~~ll~a  330 (340)
                      ..+ =++-..+||.-+=-.
T Consensus       392 ~l~-lIPHkkFtFaKiWlm  409 (677)
T KOG1915|consen  392 CLD-LIPHKKFTFAKIWLM  409 (677)
T ss_pred             HHh-hcCcccchHHHHHHH
Confidence            776 234444566655333

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.41  E-value=0.00028  Score=57.48  Aligned_cols=84  Identities=11%  Similarity=0.065  Sum_probs=49.8

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccCh
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADY   93 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~   93 (340)
                      +.-+...+|+..|+.+++.-... +-+-...+---+..++.+.|++++|...+..+.+   ++...+-.|.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~-~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNL-DREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhcc-chhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHH
Confidence            45556667788888887776644 3332223333444556677888888888776653   2344455555555555666


Q ss_pred             hHHHHHHH
Q 044786           94 QECITLFA  101 (340)
Q Consensus        94 ~~a~~~~~  101 (340)
                      .+|..+-.
T Consensus       108 ~eA~~~~~  115 (557)
T KOG3785|consen  108 IEAKSIAE  115 (557)
T ss_pred             HHHHHHHh
Confidence            66655543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.40  E-value=3.5e-07  Score=47.28  Aligned_cols=31  Identities=29%  Similarity=0.613  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHHcCC
Q 044786          287 ASWNAMLVGYIRNGLYVEATKFLYLMKASGI  317 (340)
Q Consensus       287 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  317 (340)
                      ++|+.+|++|++.|++++|.++|++|++.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3788999999999999999999999988875

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.

>PLN02789 farnesyltranstransferase

Probab=98.40  E-value=0.00066  Score=56.55  Aligned_cols=221  Identities=7%  Similarity=-0.045  Sum_probs=115.3

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc-chhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM-NMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      +-..+...++.++|+.+..++++..      +-+..+|+.--..+...| ++++++..++.+.+...+ +..+|+--.-.
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~ln------P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~  115 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLN------PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHC------chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHH
Confidence            3334445556666777766666652      222234444434444445 456666666666655443 33334433333


Q ss_pred             HHhhcC--HHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccC---Cc
Q 044786          162 YGKFRC--LEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGV---DD  233 (340)
Q Consensus       162 ~~~~~~--~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~---~~  233 (340)
                      +.+.|+  .+++..+++.+.+   +|..+|+...-++...|+++++++.+.++.+.... +...|+.....+.+.   |.
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccc
Confidence            333343  2455666655543   35566666666666777777777777777765432 233333332222222   22


Q ss_pred             hh---chHHHHHHHHHHhCCCccHHHHHHHHHHHhcc----CCHHHHHHHHHHhhc-C-CcHHHHHHHHHHHHHcC----
Q 044786          234 DG---NCGRQMHANIVKIGLESDEYVQCGLVDMYGKC----RLLRDAERVFELIVD-K-KNIASWNAMLVGYIRNG----  300 (340)
Q Consensus       234 ~~---~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~A~~~~~~~~~-~-~~~~~~~~li~~~~~~~----  300 (340)
                      ..   +....+....+... +-|...|+-+...+...    ++..+|.+++.+... . .+......|+..|+...    
T Consensus       195 ~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~  273 (320)
T PLN02789        195 LEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTA  273 (320)
T ss_pred             ccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccch
Confidence            21   11333332333321 23566666666666552    334557777766544 2 35566677777776532    


Q ss_pred             --------------chHHHHHHHHHH
Q 044786          301 --------------LYVEATKFLYLM  312 (340)
Q Consensus       301 --------------~~~~a~~~~~~m  312 (340)
                                    ..++|.++++.+
T Consensus       274 ~~~~~~~~~~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        274 EFRDTVDTLAEELSDSTLAQAVCSEL  299 (320)
T ss_pred             hhhhhhhccccccccHHHHHHHHHHH
Confidence                          336688888877

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.39  E-value=0.00067  Score=62.70  Aligned_cols=285  Identities=11%  Similarity=0.098  Sum_probs=153.5

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCC--CCHHHHHHHHHHHHhcCChhHHHHHHhhcC-cCCcc-----c
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIK--PTLLFLNRLLLMHVSCGQLDTARQLFDEMP-LRDFN-----S   79 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~-~~~~~-----~   79 (340)
                      -|...|+.++.--.     .--.+++++..+. +++  -|+.-.+..+.++...+-..+-.++++++. ++++.     .
T Consensus       950 ~D~~LW~~VL~e~n-----~~rRqLiDqVv~t-al~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nL 1023 (1666)
T KOG0985|consen  950 SDPDLWAKVLNEEN-----PYRRQLIDQVVQT-ALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNL 1023 (1666)
T ss_pred             cChHHHHHHHhccC-----hHHHHHHHHHHHh-cCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhh
Confidence            35666776664211     1123566666655 543  356667778888888888889999988876 33332     3


Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      -|.||-...+. +..++.+..+++-.-+      .|+      +...+...+-+++|..+|+...     .+....+.|+
T Consensus      1024 QnLLiLtAika-d~trVm~YI~rLdnyD------a~~------ia~iai~~~LyEEAF~ifkkf~-----~n~~A~~VLi 1085 (1666)
T KOG0985|consen 1024 QNLLILTAIKA-DRTRVMEYINRLDNYD------APD------IAEIAIENQLYEEAFAIFKKFD-----MNVSAIQVLI 1085 (1666)
T ss_pred             hhhHHHHHhhc-ChHHHHHHHHHhccCC------chh------HHHHHhhhhHHHHHHHHHHHhc-----ccHHHHHHHH
Confidence            44555555444 3345555555554332      222      2334445555666666665431     1222222232


Q ss_pred             HHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHH
Q 044786          160 NFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGR  239 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~  239 (340)
                      +   ..+.++.|.+.-++..+|.  .|..+.++-.+.|...+|++-|-+.      -|+..|..++....+.|.+++ ..
T Consensus      1086 e---~i~~ldRA~efAe~~n~p~--vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~ed-Lv 1153 (1666)
T KOG0985|consen 1086 E---NIGSLDRAYEFAERCNEPA--VWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYED-LV 1153 (1666)
T ss_pred             H---HhhhHHHHHHHHHhhCChH--HHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHH-HH
Confidence            2   2345555555555544433  3566666666666666665554222      234456666666666666655 44


Q ss_pred             HHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHh--------hc--------------CCcHHHHHHHHHHHH
Q 044786          240 QMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELI--------VD--------------KKNIASWNAMLVGYI  297 (340)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~--------~~--------------~~~~~~~~~li~~~~  297 (340)
                      .++.+..+..-.|...+  .||-+|++.+++.+.++++..-        -+              -.++.-|..|...+.
T Consensus      1154 ~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~fi~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV 1231 (1666)
T KOG0985|consen 1154 KYLLMARKKVREPYIDS--ELIFAYAKTNRLTELEEFIAGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLV 1231 (1666)
T ss_pred             HHHHHHHHhhcCccchH--HHHHHHHHhchHHHHHHHhcCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHH
Confidence            44444444444444433  4555666666655554443210        00              013345666777777


Q ss_pred             HcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCc
Q 044786          298 RNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISA  336 (340)
Q Consensus       298 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~  336 (340)
                      ..|++..|...-++.      -+..||.-+--||...+.
T Consensus      1232 ~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~E 1264 (1666)
T KOG0985|consen 1232 YLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEE 1264 (1666)
T ss_pred             HHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhh
Confidence            777777776655443      356678877777776543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.39  E-value=1.8e-05  Score=57.89  Aligned_cols=91  Identities=8%  Similarity=0.036  Sum_probs=48.5

Q ss_pred             HHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHh
Q 044786           51 RLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKAC  127 (340)
Q Consensus        51 ~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~  127 (340)
                      .+...+...|++++|...|+.....   +...|..+...+...|++++|...|++.....      +.+...+..+..++
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~------p~~~~a~~~lg~~l  102 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD------ASHPEPVYQTGVCL  102 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC------CCCcHHHHHHHHHH
Confidence            3444555555555555555554422   33345555555555555555555555555543      34445555555555


Q ss_pred             hhccchhhHHHHHHHHHHcC
Q 044786          128 VCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus       128 ~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .+.|++++|...|+...+..
T Consensus       103 ~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        103 KMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            55555555555555555443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.36  E-value=0.0014  Score=57.14  Aligned_cols=109  Identities=13%  Similarity=0.049  Sum_probs=68.0

Q ss_pred             HHHhcccCCchhchHHHHHH--------HHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-----CCcHH---
Q 044786          224 VLKACGGVDDDGNCGRQMHA--------NIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-----KKNIA---  287 (340)
Q Consensus       224 ll~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~~---  287 (340)
                      .+......|++.. |..++.        .+.+.+..  +.+...++..|.+.++-+.|..++.+...     .+...   
T Consensus       382 ~aQl~is~gn~~~-A~~il~~~~~~~~ss~~~~~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~  458 (652)
T KOG2376|consen  382 RAQLKISQGNPEV-ALEILSLFLESWKSSILEAKHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALL  458 (652)
T ss_pred             HHHHHHhcCCHHH-HHHHHHHHhhhhhhhhhhhccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHH
Confidence            3344456666644 555555        33333333  33445566777777776667666665543     12112   


Q ss_pred             -HHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCc
Q 044786          288 -SWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISA  336 (340)
Q Consensus       288 -~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~  336 (340)
                       ++.-+...-.+.|+-++|..+++++.... .+|..+...++.+++....
T Consensus       459 ~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~d~  507 (652)
T KOG2376|consen  459 SLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARLDP  507 (652)
T ss_pred             hHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhcCH
Confidence             23333333457799999999999998753 6788999999999988653

>PLN02789 farnesyltranstransferase

Probab=98.31  E-value=0.00072  Score=56.35  Aligned_cols=187  Identities=8%  Similarity=-0.087  Sum_probs=110.9

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHhhcCcC---CcccHHHHHHHHHccc
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG-QLDTARQLFDEMPLR---DFNSWAVMIVGYVDVA   91 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g   91 (340)
                      +-..+...+..++|+.+.+.+...  -+-+..+|+.--.++...| ++++++..++.+.+.   +..+|+.--..+.+.|
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~  120 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLG  120 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcC
Confidence            334445566788888888888765  2223445555555555556 568888888777633   3345665544444555


Q ss_pred             Ch--hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh---c
Q 044786           92 DY--QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF---R  166 (340)
Q Consensus        92 ~~--~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~  166 (340)
                      +.  ++++.+++++.+.+      +-+.++|+.-.-++.+.|+++++++.++.+.+.++. +...|+.....+.+.   |
T Consensus       121 ~~~~~~el~~~~kal~~d------pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        121 PDAANKELEFTRKILSLD------AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             chhhHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccc
Confidence            42  56777777777774      556677777777777778888888888888877655 444555444444333   2


Q ss_pred             CH----HHHHHHHHHcc--c-CChhhHHHHHHHHhcc----CchhHHHHHHHHHhh
Q 044786          167 CL----EDADFVFSQLK--R-HNTVVWTAKIVNNCRE----GHFHQVFNDFKEMGR  211 (340)
Q Consensus       167 ~~----~~a~~~~~~~~--~-~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~  211 (340)
                      ..    +++.+...+..  . .|..+|+-+...+...    ++..+|.+.+.+..+
T Consensus       194 ~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             cccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            22    23444443333  2 2555666666666552    233445555555444

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.30  E-value=0.00019  Score=65.99  Aligned_cols=127  Identities=14%  Similarity=0.098  Sum_probs=71.0

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch-HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP-AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLT  155 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  155 (340)
                      +..+-.|.....+.|.+++|+.+++...+.       .|+ ......+...+.+.+++++|....++..+.... +....
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~-------~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~  157 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQR-------FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREI  157 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhh-------CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHH
Confidence            444555555555666666666666666655       233 334555555566666666666666666555433 44445


Q ss_pred             HHHHHHHHhhcCHHHHHHHHHHcccCC---hhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          156 GSLINFYGKFRCLEDADFVFSQLKRHN---TVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      ..+..++.+.|++++|..+|++...++   ..++..+-.++-..|+.++|...|++..+
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555666666666666666655332   34455555555556666666666666544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.29  E-value=5.8e-05  Score=69.22  Aligned_cols=131  Identities=11%  Similarity=-0.071  Sum_probs=99.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHH
Q 044786           42 IKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW  118 (340)
Q Consensus        42 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  118 (340)
                      +..+...+-.|.....+.|+.++|.++++...+  | +......+...+.+.+++++|+..+++.....      +-+..
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~------p~~~~  155 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG------SSSAR  155 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC------CCCHH
Confidence            445577777788888888888888888888773  3 33356677788888888888888888888773      34455


Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      ....+..++.+.|++++|..+|+++...+. -+..++..+...+-+.|+.++|...|+...
T Consensus       156 ~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~  215 (694)
T PRK15179        156 EILLEAKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGL  215 (694)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            666777778888888888888888887432 246777788888888888888888888764

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.29  E-value=9.8e-07  Score=45.55  Aligned_cols=31  Identities=29%  Similarity=0.607  Sum_probs=25.7

Q ss_pred             hhHHHHHHHHhccCchhHHHHHHHHHhhccc
Q 044786          184 VVWTAKIVNNCREGHFHQVFNDFKEMGRERI  214 (340)
Q Consensus       184 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  214 (340)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888887764

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.29  E-value=0.00017  Score=62.27  Aligned_cols=216  Identities=13%  Similarity=0.041  Sum_probs=161.3

Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      +.+.|+..+|.-.|+.....+      +-+...|.-|....+..++-..|+..+++.++.... +....-.|.-.|...|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd------P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg  367 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD------PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEG  367 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC------hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhh
Confidence            567889999999999998885      567779999999999999999999999988888654 6777788888899999


Q ss_pred             CHHHHHHHHHHcccCC-hhhHHHH-------H--HHHhccCchhHHHHHHHHHhh-cccCCChhhHHHHHHhcccCCchh
Q 044786          167 CLEDADFVFSQLKRHN-TVVWTAK-------I--VNNCREGHFHQVFNDFKEMGR-ERIKKNSYTFSSVLKACGGVDDDG  235 (340)
Q Consensus       167 ~~~~a~~~~~~~~~~~-~~~~~~l-------i--~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~t~~~ll~~~~~~~~~~  235 (340)
                      .-..|...++.-.... ...|...       .  ..+.....+....++|-++.. .+..+|......|--.|--.|.++
T Consensus       368 ~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  368 LQNQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             hHHHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999999888753110 0000000       0  122233334555666666643 454466667777777778888888


Q ss_pred             chHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          236 NCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       236 ~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                      + +...|+.....  +| |..+||-|--.++...+.++|..-|++..+ +| =+.++.-|..+|...|.+++|.+.|-+.
T Consensus       448 r-aiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 R-AVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             H-HHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            8 77777766653  45 788999999999999999999999999887 45 4556667888999999999999987664

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

Probab=98.29  E-value=7.5e-05  Score=54.78  Aligned_cols=125  Identities=8%  Similarity=0.030  Sum_probs=64.1

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCch--hHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNI--SLTGS  157 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  157 (340)
                      |..++..+ ..++...+...++.+.....+.   .......-.+...+...|++++|...|+.+......|+.  .....
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s---~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSS---PYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCC---hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            33344444 2555566666666666552111   111223333445555666666666666666655422221  12333


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcccC--ChhhHHHHHHHHhccCchhHHHHHHHH
Q 044786          158 LINFYGKFRCLEDADFVFSQLKRH--NTVVWTAKIVNNCREGHFHQVFNDFKE  208 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~  208 (340)
                      +...+...|++++|...++....+  ....+......|.+.|++++|...|+.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            455566666666666666554332  223344555666666666666666654

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

Probab=98.28  E-value=5.3e-05  Score=58.60  Aligned_cols=145  Identities=8%  Similarity=0.012  Sum_probs=105.5

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccC
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~   92 (340)
                      -+..|...|+++.+....+.+...     . .       .+...++.+++...++...   ..|...|..+...|...|+
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~-----~-~-------~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADP-----L-H-------QFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCc-----c-c-------cccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
Confidence            345577888888875554322211     1 0       1123566677777776655   3466678889999999999


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHh-hhccc--hhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKAC-VCTMN--MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE  169 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (340)
                      +++|...|++..+..      +-+...+..+..++ ...|+  .++|.+++++..+.+.. +...+..+...+.+.|+++
T Consensus        89 ~~~A~~a~~~Al~l~------P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~  161 (198)
T PRK10370         89 YDNALLAYRQALQLR------GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYA  161 (198)
T ss_pred             HHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHH
Confidence            999999999998884      44666777777764 56666  58999999999988765 6778888888899999999


Q ss_pred             HHHHHHHHccc
Q 044786          170 DADFVFSQLKR  180 (340)
Q Consensus       170 ~a~~~~~~~~~  180 (340)
                      +|...|+++.+
T Consensus       162 ~Ai~~~~~aL~  172 (198)
T PRK10370        162 QAIELWQKVLD  172 (198)
T ss_pred             HHHHHHHHHHh
Confidence            99999998753

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.28  E-value=0.0009  Score=52.46  Aligned_cols=150  Identities=13%  Similarity=0.082  Sum_probs=78.6

Q ss_pred             HHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcc----cCC
Q 044786          157 SLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACG----GVD  232 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~----~~~  232 (340)
                      .-...|++.|++++|.+..+....-.....+  +..+.+..+++-|...+++|.+-   -+..|.+-+..++.    ..+
T Consensus       113 ~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~gge  187 (299)
T KOG3081|consen  113 LAAIIYMHDGDFDEALKALHLGENLEAAALN--VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGE  187 (299)
T ss_pred             HhhHHhhcCCChHHHHHHHhccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccch
Confidence            3344566666666666666653222222222  23345566666666666666652   23444444444432    222


Q ss_pred             chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHHHHHHHcCchHH-HHHHH
Q 044786          233 DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAMLVGYIRNGLYVE-ATKFL  309 (340)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~-a~~~~  309 (340)
                      ...+ +..+++.+.+. .+|++.+.+...-++...|++++|+.++++...+  .++.+...+|..-...|...+ ..+.+
T Consensus       188 k~qd-AfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l  265 (299)
T KOG3081|consen  188 KIQD-AFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNL  265 (299)
T ss_pred             hhhh-HHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHH
Confidence            2323 55556655542 4666666666666666777777777777666653  344555444444444444433 23344


Q ss_pred             HHHH
Q 044786          310 YLMK  313 (340)
Q Consensus       310 ~~m~  313 (340)
                      .+++
T Consensus       266 ~QLk  269 (299)
T KOG3081|consen  266 SQLK  269 (299)
T ss_pred             HHHH
Confidence            4443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.27  E-value=0.0021  Score=55.48  Aligned_cols=65  Identities=14%  Similarity=0.176  Sum_probs=55.0

Q ss_pred             CCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC
Q 044786            6 LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP   73 (340)
Q Consensus         6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   73 (340)
                      -|.|..+|+.||+-+... ..+++.+.++++...  ++-+...|..-|..-.+.++++.++.+|.+-.
T Consensus        16 nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCL   80 (656)
T KOG1914|consen   16 NPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCL   80 (656)
T ss_pred             CCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            366889999999988666 999999999999865  66677888899999999999999999888744

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.21  E-value=0.0012  Score=64.13  Aligned_cols=261  Identities=9%  Similarity=-0.042  Sum_probs=158.9

Q ss_pred             HHHHHHHhcCChhHHHHHHhhcCc----CC---c-c----cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccc--h
Q 044786           51 RLLLMHVSCGQLDTARQLFDEMPL----RD---F-N----SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVF--P  116 (340)
Q Consensus        51 ~li~~~~~~~~~~~a~~~~~~~~~----~~---~-~----~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~--~  116 (340)
                      .....+...|++++|...++....    .+   . .    ....+...+...|++++|...+++..... ...  .+  .
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-~~~--~~~~~  490 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAEL-PLT--WYYSR  490 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC-CCc--cHHHH
Confidence            334455677899998888876531    11   1 1    11122344567899999999999887641 110  11  1


Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCC-----CCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC----------
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGS-----SRNISLTGSLINFYGKFRCLEDADFVFSQLKRH----------  181 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----------  181 (340)
                      ....+.+...+...|++++|...+++.....-     .....++..+...+...|++++|...+++....          
T Consensus       491 ~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~  570 (903)
T PRK04841        491 IVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLP  570 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhcccccc
Confidence            23455666777889999999999887764321     111234556677788899999999988775421          


Q ss_pred             -ChhhHHHHHHHHhccCchhHHHHHHHHHhhc--ccCCC--hhhHHHHHHhcccCCchhchHHHHHHHHHHh----CCCc
Q 044786          182 -NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE--RIKKN--SYTFSSVLKACGGVDDDGNCGRQMHANIVKI----GLES  252 (340)
Q Consensus       182 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~----~~~~  252 (340)
                       ....+..+...+...|++++|...+++....  ...+.  ...+..+...+...|+.++ +...+......    +...
T Consensus       571 ~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~-A~~~l~~a~~~~~~~~~~~  649 (903)
T PRK04841        571 MHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDN-ARRYLNRLENLLGNGRYHS  649 (903)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHHHhcccccH
Confidence             1123444556677789999999999887542  11122  2334445556677888866 55554444322    1111


Q ss_pred             cHHH--HHHHHHHHhccCCHHHHHHHHHHhhcC--CcH----HHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          253 DEYV--QCGLVDMYGKCRLLRDAERVFELIVDK--KNI----ASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       253 ~~~~--~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ....  -...+..+...|+.+.|.+.+......  ...    ..+..+..++...|++++|...+++....
T Consensus       650 ~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        650 DWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             hHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            1101  011224455688999999998776542  111    11345667788999999999999987654

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

Probab=98.18  E-value=7.3e-05  Score=54.09  Aligned_cols=102  Identities=8%  Similarity=-0.090  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHH
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNN  193 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~  193 (340)
                      ......+...+...|++++|.+.++.+.+.+.. +...+..+...+.+.|++++|...++...+.   +...+..+...+
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~   95 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            344556666666777777777777777665532 5566667777777777777777777765422   445566667777


Q ss_pred             hccCchhHHHHHHHHHhhcccCCChhhH
Q 044786          194 CREGHFHQVFNDFKEMGRERIKKNSYTF  221 (340)
Q Consensus       194 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~  221 (340)
                      ...|++++|...|++..+.  .|+...+
T Consensus        96 ~~~g~~~~A~~~~~~al~~--~p~~~~~  121 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI--CGENPEY  121 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh--ccccchH
Confidence            7788888888888777764  3544443

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

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.18  E-value=0.0004  Score=62.02  Aligned_cols=78  Identities=17%  Similarity=0.158  Sum_probs=34.9

Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC--ChhhHHHHHHHHhccC
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH--NTVVWTAKIVNNCREG  197 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~li~~~~~~~  197 (340)
                      |..+...|+..|+++.|.++|-+.         ..++-.|.+|.+.|+|..|.++-.+...|  ..+.|-+-..-+-.+|
T Consensus       768 y~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehg  838 (1636)
T KOG3616|consen  768 YGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHG  838 (1636)
T ss_pred             chHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhc
Confidence            444445555555555555554321         12333455555555555555555554433  2222333333333444


Q ss_pred             chhHHHHHH
Q 044786          198 HFHQVFNDF  206 (340)
Q Consensus       198 ~~~~a~~~~  206 (340)
                      ++.+|.++|
T Consensus       839 kf~eaeqly  847 (1636)
T KOG3616|consen  839 KFAEAEQLY  847 (1636)
T ss_pred             chhhhhhee
Confidence            444444433

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.17  E-value=0.00069  Score=57.62  Aligned_cols=133  Identities=10%  Similarity=0.004  Sum_probs=69.8

Q ss_pred             hcCChhHHHHHHhhcC--cC-CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch-HHHHHHHHHHhhhccch
Q 044786           58 SCGQLDTARQLFDEMP--LR-DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP-AWIIVCVLKACVCTMNM  133 (340)
Q Consensus        58 ~~~~~~~a~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~  133 (340)
                      ..|+.++|+..++.+.  .| |+.-+......+.+.++.++|.+.++++...       .|+ ....-.+..++.+.|++
T Consensus       318 ~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l-------~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL-------DPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-------CCCccHHHHHHHHHHHhcCCh
Confidence            4455555555555544  22 3333444445555556666666666665555       233 33444455555555666


Q ss_pred             hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          134 ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       134 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      .+|..+++........ |+..|..|..+|...|+..++..-.              -..|...|++++|+..+....+.
T Consensus       391 ~eai~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~--------------AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         391 QEAIRILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLAR--------------AEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHH--------------HHHHHhCCCHHHHHHHHHHHHHh
Confidence            6665555555544322 5555666666666666555554432              23445556666666655555443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.13  E-value=0.0023  Score=50.25  Aligned_cols=261  Identities=7%  Similarity=0.021  Sum_probs=127.1

Q ss_pred             CCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHH
Q 044786            3 NLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAV   82 (340)
Q Consensus         3 ~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   82 (340)
                      ..+..|+...|+  ++.+.-.|++..++..-+..... .  -+...-.-+-++|.-.|.......-...-..+.......
T Consensus         3 ~~~~g~~d~LF~--iRn~fY~Gnyq~~ine~~~~~~~-~--~~~e~d~y~~raylAlg~~~~~~~eI~~~~~~~lqAvr~   77 (299)
T KOG3081|consen    3 SMEAGPEDELFN--IRNYFYLGNYQQCINEAEKFSSS-K--TDVELDVYMYRAYLALGQYQIVISEIKEGKATPLQAVRL   77 (299)
T ss_pred             ccccCcchhHHH--HHHHHHhhHHHHHHHHHHhhccc-c--chhHHHHHHHHHHHHcccccccccccccccCChHHHHHH
Confidence            334445434443  45566678888877766655543 1  233333334455555555443332211111111111222


Q ss_pred             HHHHHHcccChhHH-HHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           83 MIVGYVDVADYQEC-ITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        83 li~~~~~~g~~~~a-~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      +...+..-++-++- .++.+.+....  .   ..+......-...|...+++++|++.....      -+......=+..
T Consensus        78 ~a~~~~~e~~~~~~~~~l~E~~a~~~--~---~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI  146 (299)
T KOG3081|consen   78 LAEYLELESNKKSILASLYELVADST--D---GSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQI  146 (299)
T ss_pred             HHHHhhCcchhHHHHHHHHHHHHhhc--c---chhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHH
Confidence            22222222222222 22333333321  1   122222333345566677777777665541      122233333455


Q ss_pred             HHhhcCHHHHHHHHHHcccCC-hhhHHHHHHHHhc----cCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhc
Q 044786          162 YGKFRCLEDADFVFSQLKRHN-TVVWTAKIVNNCR----EGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  236 (340)
                      +.+..+++-|++.+++|.+-| -.|.+.|..++.+    .+...+|.-+|++|.++ ..|+..+.+-...++...+++++
T Consensus       147 ~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~ee  225 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEE  225 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHH
Confidence            666677777777777776653 3344444444443    45577777777777664 45667777777777777777755


Q ss_pred             hHHHHHHHHHHhCCCccHHHHHHHHHHHhccCC-HHHHHHHHHHhhc
Q 044786          237 CGRQMHANIVKIGLESDEYVQCGLVDMYGKCRL-LRDAERVFELIVD  282 (340)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~~A~~~~~~~~~  282 (340)
                       |+.+++.......+ ++.+...+|-.-...|. .+...+.+..++.
T Consensus       226 -Ae~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  226 -AESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             -HHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence             66666665554322 33333333333333333 3344455555543

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.12  E-value=0.00024  Score=60.31  Aligned_cols=136  Identities=10%  Similarity=-0.030  Sum_probs=111.9

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CC-cccHHHHHHHHHcccChhHH
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RD-FNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~a   96 (340)
                      ....|+++.|+..++.+...  .+-|+.........+.+.++.++|.+.++.+..  |+ ...+-.+..++.+.|++.+|
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHH
Confidence            34678999999999998865  555667777778999999999999999999984  43 33566678899999999999


Q ss_pred             HHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      +++++......      +-|...|..|..+|...|+..++..-..                  +.|...|+++.|...+.
T Consensus       394 i~~L~~~~~~~------p~dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~  449 (484)
T COG4783         394 IRILNRYLFND------PEDPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLM  449 (484)
T ss_pred             HHHHHHHhhcC------CCCchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHH
Confidence            99999998874      6788899999999999999888876443                  45667789999988887


Q ss_pred             HcccC
Q 044786          177 QLKRH  181 (340)
Q Consensus       177 ~~~~~  181 (340)
                      ...+.
T Consensus       450 ~A~~~  454 (484)
T COG4783         450 RASQQ  454 (484)
T ss_pred             HHHHh
Confidence            76644

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

Probab=98.11  E-value=5.9e-05  Score=54.57  Aligned_cols=95  Identities=14%  Similarity=0.095  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHH
Q 044786           47 LFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV  123 (340)
Q Consensus        47 ~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l  123 (340)
                      .....+...+...|++++|.+.|+....   .+...|..+...+.+.|++++|...+++....+      +.+..++..+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~------p~~~~~~~~l   91 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD------PDDPRPYFHA   91 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC------CCChHHHHHH
Confidence            3344444555556666666666655542   233445555566666666666666666655542      3344555555


Q ss_pred             HHHhhhccchhhHHHHHHHHHHcC
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      ...+...|+++.|.+.++...+..
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        92 AECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhc
Confidence            566666666666666666666554

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

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.09  E-value=0.0073  Score=54.46  Aligned_cols=173  Identities=10%  Similarity=-0.058  Sum_probs=103.0

Q ss_pred             CCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCC--c--cc
Q 044786            4 LCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRD--F--NS   79 (340)
Q Consensus         4 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~--~~   79 (340)
                      ..+..++..|..+.-+....|++..+-+.|++....  .--....|+.+-..+.-.|.-..|..+.+.-..+.  +  .+
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~--~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF--SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh--hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            345678888888888999999999999999988764  33466788888888888888888888887655322  2  21


Q ss_pred             -HHHHHHHHH-cccChhHHHHHHHHHHHhhcCC-ccc-------------------------------------------
Q 044786           80 -WAVMIVGYV-DVADYQECITLFAEMMKRKKGH-MLL-------------------------------------------  113 (340)
Q Consensus        80 -~~~li~~~~-~~g~~~~a~~~~~~m~~~~~~~-~~~-------------------------------------------  113 (340)
                       +-..-..|. +.+..++++..-.+......+. ..+                                           
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence             111112222 2244444444444433310000 000                                           


Q ss_pred             cchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      +.|..+...+---++..++++.|.+..++..+.+...+...|..|.-.+...+++.+|+.+.+..
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            11122222222334455667777777777777655556666766666677777777777766554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.08  E-value=0.0044  Score=57.64  Aligned_cols=230  Identities=13%  Similarity=0.104  Sum_probs=120.8

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhH
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQE   95 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~   95 (340)
                      +...+...+-+++|..+|+...      .+....+.||.   .-+.+|.|.+.-++..+|  ..|.-+..+-.+.|...+
T Consensus      1054 ia~iai~~~LyEEAF~ifkkf~------~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~d 1122 (1666)
T KOG0985|consen 1054 IAEIAIENQLYEEAFAIFKKFD------MNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKD 1122 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhc------ccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHH
Confidence            3444555566666666665432      23333333332   234455555555544433  345555555555555555


Q ss_pred             HHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHH
Q 044786           96 CITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVF  175 (340)
Q Consensus        96 a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  175 (340)
                      |++-|-+           .-|...|..++..+.+.|.+++..+++...++..-.|.+.  +.|+-+|.+.+++.+.++..
T Consensus      1123 AieSyik-----------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1123 AIESYIK-----------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHHHHh-----------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh
Confidence            5554433           1234445556666666666666655555555544444332  24555555555555544432


Q ss_pred             HHcc-----------------------cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCC
Q 044786          176 SQLK-----------------------RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVD  232 (340)
Q Consensus       176 ~~~~-----------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  232 (340)
                      ..-.                       -.++.-|..+...+...|.+..|.+--++.      -+..||..+-.+|...+
T Consensus      1190 ~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1190 AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKE 1263 (1666)
T ss_pred             cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchh
Confidence            2100                       013444666666677777777776554433      24567777777776655


Q ss_pred             chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          233 DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      .+ +.|     .+-..++-....-..-|+.-|-..|-+++...+++...
T Consensus      1264 EF-rlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1264 EF-RLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             hh-hHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            54 211     12222333344555667777777777777777766543

>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=98.07  E-value=0.00015  Score=61.73  Aligned_cols=126  Identities=17%  Similarity=0.170  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH
Q 044786           47 LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA  126 (340)
Q Consensus        47 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~  126 (340)
                      .....|+..+...++++.|.++|+++.+.++.....+++.+...++-.+|.+++++.....      +-+...+..-...
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~------p~d~~LL~~Qa~f  243 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN------PQDSELLNLQAEF  243 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC------CCCHHHHHHHHHH
Confidence            3444556666677888888888888888887777788888888888888888888888763      4466677777777


Q ss_pred             hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          127 CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       127 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      +.+.++++.|.++.+++.+..+. +-.+|..|..+|.+.|+++.|+..++.++
T Consensus       244 Ll~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            88888888888888888877533 45588888888888899888888888776

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

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.05  E-value=0.0044  Score=50.61  Aligned_cols=285  Identities=12%  Similarity=0.075  Sum_probs=149.6

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHH---HHHHhcCChhHHHHHHhhcCcCCcccHHHHH---HHHHcccChhH
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLL---LMHVSCGQLDTARQLFDEMPLRDFNSWAVMI---VGYVDVADYQE   95 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~   95 (340)
                      ..|++..|+.-|.....-     |+..|.++.   ..|...|+-..|+.=+.++.+.-+..+.+-+   ..+.+.|.+++
T Consensus        50 a~~Q~sDALt~yHaAve~-----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~  124 (504)
T KOG0624|consen   50 ARGQLSDALTHYHAAVEG-----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQ  124 (504)
T ss_pred             HhhhHHHHHHHHHHHHcC-----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccHHH
Confidence            344444444444444322     333333333   3455556555555555555432222222222   34567777777


Q ss_pred             HHHHHHHHHHhhcCCcc-------ccch--HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           96 CITLFAEMMKRKKGHML-------LVFP--AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        96 a~~~~~~m~~~~~~~~~-------~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      |..-|+..++....-..       +.+.  .......+..+...|+...|+....++++.. ..|...|..-..+|...|
T Consensus       125 A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~  203 (504)
T KOG0624|consen  125 AEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEG  203 (504)
T ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcC
Confidence            77777777766310000       0001  1122334455556677777777777776654 336666777777777778


Q ss_pred             CHHHHHHHHHHc---ccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhh----HHHH---HHh------ccc
Q 044786          167 CLEDADFVFSQL---KRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYT----FSSV---LKA------CGG  230 (340)
Q Consensus       167 ~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t----~~~l---l~~------~~~  230 (340)
                      ++.+|..=++..   ...++.++--+-..+...|+.+.++..+++-.+  +.||...    |..+   ...      ...
T Consensus       204 e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie  281 (504)
T KOG0624|consen  204 EPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIE  281 (504)
T ss_pred             cHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            777776655543   334555555556666677777777777776665  3455422    2111   111      112


Q ss_pred             CCchhchHHHHHHHHHHhCCCccHH---HHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHH
Q 044786          231 VDDDGNCGRQMHANIVKIGLESDEY---VQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEA  305 (340)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a  305 (340)
                      .+++.+ +..-.+...+........   .+..+-.+|...+++.+|.+...+... .| |+.++.--..+|.-...++.|
T Consensus       282 ~~~~t~-cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~A  360 (504)
T KOG0624|consen  282 EKHWTE-CLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDA  360 (504)
T ss_pred             hhhHHH-HHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHH
Confidence            233322 222222222222111122   233344455566777788877777765 23 466766666777777777777


Q ss_pred             HHHHHHHHHc
Q 044786          306 TKFLYLMKAS  315 (340)
Q Consensus       306 ~~~~~~m~~~  315 (340)
                      +.-|+...+.
T Consensus       361 I~dye~A~e~  370 (504)
T KOG0624|consen  361 IHDYEKALEL  370 (504)
T ss_pred             HHHHHHHHhc
Confidence            7777766544

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

Probab=98.04  E-value=0.00015  Score=53.23  Aligned_cols=122  Identities=9%  Similarity=0.038  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCcCCccc-HHH-----HHHHHHcccChhHHHHHHHHHHHhhcCCccccch--HHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPLRDFNS-WAV-----MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP--AWI  119 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~-----li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~~~  119 (340)
                      .|..++..+ ..++...+.+.++.+......+ |..     +...+...|++++|...|+......  .   .|+  ...
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~--~---d~~l~~~a   87 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA--P---DPELKPLA   87 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--C---CHHHHHHH
Confidence            344444444 4677777777777777443332 332     3356677888888888888888762  1   121  234


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHH
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQ  177 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (340)
                      ...+...+...|++++|...++......  .....+....+.|.+.|++++|...|+.
T Consensus        88 ~l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   88 RLRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4556777788888888888886643333  2344666778888889999999888875

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.03  E-value=0.0078  Score=52.65  Aligned_cols=188  Identities=7%  Similarity=-0.060  Sum_probs=124.9

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHH--HHHHHH--
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAV--MIVGYV--   88 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--li~~~~--   88 (340)
                      +-+=++-+...+++++|.+....+... + +.+...+..=+-+..+.+++++|+.+.+.-....  +++.  +=.+||  
T Consensus        15 l~t~ln~~~~~~e~e~a~k~~~Kil~~-~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   15 LLTDLNRHGKNGEYEEAVKTANKILSI-V-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALL--VINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHhc-C-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh--hcchhhHHHHHHHH
Confidence            344456677888999999999999976 3 5566677777777888899999997665543211  2222  234444  


Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-------------------
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-------------------  149 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-------------------  149 (340)
                      +.+..++|+..++-.-         +.+..+...=...+.+.|++++|..+|+++.+.+..                   
T Consensus        91 rlnk~Dealk~~~~~~---------~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~  161 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD---------RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQV  161 (652)
T ss_pred             HcccHHHHHHHHhccc---------ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhH
Confidence            5688888888887221         233445556667788889999999999888655421                   


Q ss_pred             --------CchhHHHHHH---HHHHhhcCHHHHHHHHHHcc--------cCC-----hh-----hHHHHHHHHhccCchh
Q 044786          150 --------RNISLTGSLI---NFYGKFRCLEDADFVFSQLK--------RHN-----TV-----VWTAKIVNNCREGHFH  200 (340)
Q Consensus       150 --------~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~--------~~~-----~~-----~~~~li~~~~~~~~~~  200 (340)
                              ....+|..+.   ..+...|++.+|+++++...        +.|     ..     .--.+.-.+...|+..
T Consensus       162 ~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~  241 (652)
T KOG2376|consen  162 QLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTA  241 (652)
T ss_pred             HHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchH
Confidence                    0112343333   34567799999999998872        111     11     1122344556789999


Q ss_pred             HHHHHHHHHhhcc
Q 044786          201 QVFNDFKEMGRER  213 (340)
Q Consensus       201 ~a~~~~~~m~~~~  213 (340)
                      +|..++....+..
T Consensus       242 ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  242 EASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998764

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.01  E-value=0.00022  Score=54.35  Aligned_cols=117  Identities=9%  Similarity=0.031  Sum_probs=87.0

Q ss_pred             cchHHHHHHHHHHhhh-----ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHH
Q 044786          114 VFPAWIIVCVLKACVC-----TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTA  188 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  188 (340)
                      ..+..+|..++..+.+     .|..+-....++.|.+.|+.-|..+|+.|++.+=+ |.+- -               .+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p---------------~n  106 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-P---------------RN  106 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-c---------------cc
Confidence            5677777777777764     47788888889999999999999999999998875 4322 1               11


Q ss_pred             HHHHHh--ccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          189 KIVNNC--REGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       189 li~~~~--~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                      ++.+-.  .-.+-+-|++++++|...|+.||..|+..++..+++.+..-.....+.-+|.+
T Consensus       107 ~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  107 FFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            111111  12345678999999999999999999999999999988875545555555544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.00  E-value=0.0034  Score=56.41  Aligned_cols=79  Identities=13%  Similarity=0.149  Sum_probs=42.7

Q ss_pred             HHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCH
Q 044786          191 VNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLL  270 (340)
Q Consensus       191 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  270 (340)
                      .+-.....|.+|+.+++.++....  -..-|..+...|+..|+++. ++.++-.         ...++--|.+|.+.|++
T Consensus       740 eaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~-ae~lf~e---------~~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEI-AEELFTE---------ADLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHH-HHHHHHh---------cchhHHHHHHHhccccH
Confidence            344445566666666666655432  12235555666666666643 5544432         12334456666666666


Q ss_pred             HHHHHHHHHhh
Q 044786          271 RDAERVFELIV  281 (340)
Q Consensus       271 ~~A~~~~~~~~  281 (340)
                      +.|.++-.+..
T Consensus       808 ~da~kla~e~~  818 (1636)
T KOG3616|consen  808 EDAFKLAEECH  818 (1636)
T ss_pred             HHHHHHHHHhc
Confidence            66666655554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=0.0089  Score=51.67  Aligned_cols=141  Identities=9%  Similarity=-0.058  Sum_probs=90.1

Q ss_pred             HHHHhccCchhHHHHHHHHHhhcccCCChhhHHH-------------------------HHHhcccCCchhchHHHHHHH
Q 044786          190 IVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSS-------------------------VLKACGGVDDDGNCGRQMHAN  244 (340)
Q Consensus       190 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~-------------------------ll~~~~~~~~~~~~~~~~~~~  244 (340)
                      ..+|.+.++++.|+..|.+.......|+..+=..                         --..+.+.|++.. +..-+..
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~-Av~~Yte  383 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPE-AVKHYTE  383 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHH-HHHHHHH
Confidence            3466667788888888877655443443221110                         1122456677756 4444444


Q ss_pred             HHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchh
Q 044786          245 IVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQES  322 (340)
Q Consensus       245 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  322 (340)
                      +++.. +-|...|..-.-+|.+.|.+..|.+=.+.-.+  ++.+..|..=..++....+|++|++.|++-.+..  |+..
T Consensus       384 AIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d--p~~~  460 (539)
T KOG0548|consen  384 AIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD--PSNA  460 (539)
T ss_pred             HHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--chhH
Confidence            55543 55788888888888888888888776655544  2345556655666667778888998888877664  7776


Q ss_pred             HHHHHHHHhhhc
Q 044786          323 LINDLRIACSSI  334 (340)
Q Consensus       323 t~~~ll~a~~~~  334 (340)
                      -+..-+.-|...
T Consensus       461 e~~~~~~rc~~a  472 (539)
T KOG0548|consen  461 EAIDGYRRCVEA  472 (539)
T ss_pred             HHHHHHHHHHHH
Confidence            676666666653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.97  E-value=8.5e-05  Score=50.04  Aligned_cols=89  Identities=12%  Similarity=0.153  Sum_probs=67.7

Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCC-CCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccC
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGS-SRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREG  197 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~  197 (340)
                      |-...|..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..-=.                       ..-.+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~-----------------------~~ie~   83 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDS-----------------------EDIEN   83 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccc-----------------------hhHHH
Confidence            334566777777999999999999999999 899999999988776542110                       11123


Q ss_pred             chhHHHHHHHHHhhcccCCChhhHHHHHHhccc
Q 044786          198 HFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG  230 (340)
Q Consensus       198 ~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  230 (340)
                      +.-+.+.+|++|...+++|+..||+.++..+.+
T Consensus        84 kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   84 KLTNLLTVYQDILSNKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            345677888999999999999999999877643

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.95  E-value=0.00056  Score=49.66  Aligned_cols=103  Identities=8%  Similarity=-0.001  Sum_probs=66.0

Q ss_pred             HhhcC-cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           69 FDEMP-LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        69 ~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      +..+. +.+....-.+..-+...|++++|.++|+-....+      +-+..-|..|.-++-..|++++|...|.......
T Consensus        26 l~~~~~~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D------p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~   99 (157)
T PRK15363         26 LLDDDVTQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD------AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK   99 (157)
T ss_pred             HHCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            33344 3344444445555666777777777777777664      4455566666666666777777777777777666


Q ss_pred             CCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          148 SSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       148 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      + -++..+-.+..++...|+.+.|.+.|+..
T Consensus       100 ~-ddp~~~~~ag~c~L~lG~~~~A~~aF~~A  129 (157)
T PRK15363        100 I-DAPQAPWAAAECYLACDNVCYAIKALKAV  129 (157)
T ss_pred             C-CCchHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4 36666666677777777777777766654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.90  E-value=0.0056  Score=56.10  Aligned_cols=109  Identities=15%  Similarity=0.108  Sum_probs=63.8

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHH
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECIT   98 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~   98 (340)
                      ..+++..|.+..+.+.+.++-.+-..++.++.  +.|.|+.++|..+++....   .|..|...+-.+|.+.++.++|..
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHH
Confidence            45667777777776666522222222222222  3566777777766666552   255566666677777777777777


Q ss_pred             HHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHH
Q 044786           99 LFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQV  139 (340)
Q Consensus        99 ~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  139 (340)
                      +|++....       .|+......+..+|.+.+++.+-.+.
T Consensus        99 ~Ye~~~~~-------~P~eell~~lFmayvR~~~yk~qQka  132 (932)
T KOG2053|consen   99 LYERANQK-------YPSEELLYHLFMAYVREKSYKKQQKA  132 (932)
T ss_pred             HHHHHHhh-------CCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77776665       45566666666666666655444433

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.90  E-value=0.00032  Score=60.05  Aligned_cols=120  Identities=12%  Similarity=-0.010  Sum_probs=73.6

Q ss_pred             CCChhhHHHHHHhcccCCchhchHHHHHHHHHHh-CCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc---CCcHHHHH
Q 044786          215 KKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI-GLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD---KKNIASWN  290 (340)
Q Consensus       215 ~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~  290 (340)
                      +.+...+..++..+....+.+++...+++.-... ....-+.|..++|+.|.+.|..+.+..+++.=..   =||..++|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            3455566666666666666655333333322221 2223334445777777777777777776654332   16777777


Q ss_pred             HHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhc
Q 044786          291 AMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSI  334 (340)
Q Consensus       291 ~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~  334 (340)
                      .|+..+.+.|++..|.++..+|...+.-.++.|+.--+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            77777777777777777777777776666777777777666665

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.89  E-value=0.00014  Score=49.01  Aligned_cols=82  Identities=12%  Similarity=0.067  Sum_probs=64.2

Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHHhhccc-CCChhhHHHHHHhcccCCc----hhc---hHHHHHHHHHHhCCCccHHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEMGRERI-KKNSYTFSSVLKACGGVDD----DGN---CGRQMHANIVKIGLESDEYV  256 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~ll~~~~~~~~----~~~---~~~~~~~~~~~~~~~~~~~~  256 (340)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..-    .+.   ....+++.+...+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            345567777778999999999999999999 9999999999998765332    111   14456778888889999999


Q ss_pred             HHHHHHHHhc
Q 044786          257 QCGLVDMYGK  266 (340)
Q Consensus       257 ~~~li~~~~~  266 (340)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9988887764

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.89  E-value=0.015  Score=53.19  Aligned_cols=188  Identities=11%  Similarity=0.052  Sum_probs=113.7

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCC--------CCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNI--------KPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~--------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      +...|..+.+.|.+.++++-|.-.+..|....|.        .|+ .+-....-.....|-+++|+.++++-+.     |
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----~  829 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----Y  829 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----H
Confidence            4456888999999999999998888887755332        121 2222222233456778888888777653     3


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH----------HcC---
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF----------KLG---  147 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----------~~~---  147 (340)
                      ..|-..|-..|.|++|.++-+.--    .    ..-..||..-..-+...++.+.|++.|+...          ...   
T Consensus       830 DLlNKlyQs~g~w~eA~eiAE~~D----R----iHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~  901 (1416)
T KOG3617|consen  830 DLLNKLYQSQGMWSEAFEIAETKD----R----IHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQ  901 (1416)
T ss_pred             HHHHHHHHhcccHHHHHHHHhhcc----c----eehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHH
Confidence            444455666777777776644311    1    1234456656666666666666666665321          111   


Q ss_pred             ------CCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc------------------------CChhhHHHHHHHHhccC
Q 044786          148 ------SSRNISLTGSLINFYGKFRCLEDADFVFSQLKR------------------------HNTVVWTAKIVNNCREG  197 (340)
Q Consensus       148 ------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------------------------~~~~~~~~li~~~~~~~  197 (340)
                            -..|...|.--...+-..|+++.|+.+|.....                        .|....-.+.+.|-..|
T Consensus       902 ~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g  981 (1416)
T KOG3617|consen  902 IEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDG  981 (1416)
T ss_pred             HHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhH
Confidence                  012333444444445556777777777665432                        14555666788888889


Q ss_pred             chhHHHHHHHHHh
Q 044786          198 HFHQVFNDFKEMG  210 (340)
Q Consensus       198 ~~~~a~~~~~~m~  210 (340)
                      ++.+|..+|.+.+
T Consensus       982 ~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  982 DVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998887765

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.88  E-value=0.00092  Score=57.36  Aligned_cols=85  Identities=9%  Similarity=0.038  Sum_probs=39.7

Q ss_pred             hhHHHHHHHHHHhhcCHHHHHHHHHHcccC------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHH
Q 044786          152 ISLTGSLINFYGKFRCLEDADFVFSQLKRH------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVL  225 (340)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll  225 (340)
                      ......+++......+++.+..++.+....      -..|..++|+.|...|..++++.+++.=..-|+-||..|++.++
T Consensus        66 ~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lm  145 (429)
T PF10037_consen   66 SLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLM  145 (429)
T ss_pred             HHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHH
Confidence            333344444444444444444444443211      11233455555555555555555555555555555555555555


Q ss_pred             HhcccCCchhc
Q 044786          226 KACGGVDDDGN  236 (340)
Q Consensus       226 ~~~~~~~~~~~  236 (340)
                      ..+.+.|++..
T Consensus       146 d~fl~~~~~~~  156 (429)
T PF10037_consen  146 DHFLKKGNYKS  156 (429)
T ss_pred             HHHhhcccHHH
Confidence            55555555544

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.86  E-value=0.016  Score=52.44  Aligned_cols=277  Identities=10%  Similarity=0.007  Sum_probs=166.7

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC----cCCcccHHHHHHHHHcccChhHHHHHH
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP----LRDFNSWAVMIVGYVDVADYQECITLF  100 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~  100 (340)
                      ...++++.++...+..+-.|+...|-++  -|+..++++.|.+...+..    ..+...|..+...+...+++.+|+.+.
T Consensus       459 ~h~kslqale~av~~d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vv  536 (799)
T KOG4162|consen  459 LHKKSLQALEEAVQFDPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVV  536 (799)
T ss_pred             HHHHHHHHHHHHHhcCCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            4567888888888774455554444443  4667788999988887765    346778999999999999999999999


Q ss_pred             HHHHHhhcCCccccchHH-HHHHHHHHhhhccchhhHHHHHHHHHH---------------------cCC-----CC--c
Q 044786          101 AEMMKRKKGHMLLVFPAW-IIVCVLKACVCTMNMELGKQVHGLLFK---------------------LGS-----SR--N  151 (340)
Q Consensus       101 ~~m~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~---------------------~~~-----~~--~  151 (340)
                      +.....-       |+.. ....=+..-...++.+++.....++..                     .|.     +|  .
T Consensus       537 d~al~E~-------~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a  609 (799)
T KOG4162|consen  537 DAALEEF-------GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDA  609 (799)
T ss_pred             HHHHHHh-------hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCccccccc
Confidence            9888772       2211 111111111123333333333222211                     111     11  1


Q ss_pred             hhHHHHHHHHHHhhc---CHHHHHHHHHHcccCC------hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhH
Q 044786          152 ISLTGSLINFYGKFR---CLEDADFVFSQLKRHN------TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTF  221 (340)
Q Consensus       152 ~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~  221 (340)
                      ..++..+.......+   ..+.....+.....++      ...|......+.+.++.++|...+.+....  .| ....|
T Consensus       610 ~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~  687 (799)
T KOG4162|consen  610 ISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVY  687 (799)
T ss_pred             chhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHH
Confidence            223333222222111   1111111111111222      123555566777888888888777777653  33 34444


Q ss_pred             HHHHHhcccCCchhchHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHH--HHHHhhc--CCcHHHHHHHHHHH
Q 044786          222 SSVLKACGGVDDDGNCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAER--VFELIVD--KKNIASWNAMLVGY  296 (340)
Q Consensus       222 ~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~--~~~~~~~--~~~~~~~~~li~~~  296 (340)
                      ...-..+...|..++ |...+.....  +.| ++....++..++.+.|+...|..  ++..+..  +.+...|-.+...+
T Consensus       688 ~~~G~~~~~~~~~~E-A~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~  764 (799)
T KOG4162|consen  688 YLRGLLLEVKGQLEE-AKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVF  764 (799)
T ss_pred             HHhhHHHHHHHhhHH-HHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Confidence            444445556666656 5444444333  445 55677889999999999888888  8887765  34888999999999


Q ss_pred             HHcCchHHHHHHHHHHHHc
Q 044786          297 IRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       297 ~~~~~~~~a~~~~~~m~~~  315 (340)
                      -+.|+.+.|.+.|+.-.+.
T Consensus       765 k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  765 KKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHccchHHHHHHHHHHHhh
Confidence            9999999999999886554

>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=97.86  E-value=0.00034  Score=46.48  Aligned_cols=92  Identities=15%  Similarity=0.030  Sum_probs=50.8

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      +..+...+...|++++|...+++..+..      +.+...+..+...+...+++++|.+.++...+.... +..++..+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~   75 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD------PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLG   75 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC------CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHH
Confidence            3445555566666666666666666552      223345555556666666666666666665554422 223445555


Q ss_pred             HHHHhhcCHHHHHHHHHHc
Q 044786          160 NFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~  178 (340)
                      ..+...|++++|...+...
T Consensus        76 ~~~~~~~~~~~a~~~~~~~   94 (100)
T cd00189          76 LAYYKLGKYEEALEAYEKA   94 (100)
T ss_pred             HHHHHHHhHHHHHHHHHHH
Confidence            5555555555555555443

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

Probab=97.85  E-value=0.0081  Score=56.49  Aligned_cols=233  Identities=11%  Similarity=0.039  Sum_probs=145.6

Q ss_pred             CCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CCcc-cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch
Q 044786           41 NIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RDFN-SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP  116 (340)
Q Consensus        41 g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  116 (340)
                      .+.| +...+..|+..+...+++++|.++.+....  |+.. .|-.+...+...++...+..+  .+             
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~-------------   89 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NL-------------   89 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hh-------------
Confidence            3444 456778888888888888888888876553  3322 343344455566665555444  22             


Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHH
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNN  193 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~  193 (340)
                             +.......++..+..+++.+...+  .+...+..+..+|-+.|+.++|..+|+++.+-   |+.+.|.+.-.|
T Consensus        90 -------l~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~  160 (906)
T PRK14720         90 -------IDSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSY  160 (906)
T ss_pred             -------hhhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHH
Confidence                   222223334434444444454433  23446777888888889999999999887643   667788888888


Q ss_pred             hccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHH
Q 044786          194 CREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDA  273 (340)
Q Consensus       194 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  273 (340)
                      ... +.++|..++.+.+..               +...+++.. +..++..+....  |               .+++.-
T Consensus       161 ae~-dL~KA~~m~~KAV~~---------------~i~~kq~~~-~~e~W~k~~~~~--~---------------~d~d~f  206 (906)
T PRK14720        161 EEE-DKEKAITYLKKAIYR---------------FIKKKQYVG-IEEIWSKLVHYN--S---------------DDFDFF  206 (906)
T ss_pred             HHh-hHHHHHHHHHHHHHH---------------HHhhhcchH-HHHHHHHHHhcC--c---------------ccchHH
Confidence            888 888888888887763               333344433 666666665542  1               122222


Q ss_pred             HHHHHHhhc----CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhh
Q 044786          274 ERVFELIVD----KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACS  332 (340)
Q Consensus       274 ~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~  332 (340)
                      .++.+.+..    ..-+.++-.+-..|-..++|+++..+++...+..-. |.....-++.+|.
T Consensus       207 ~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        207 LRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            333333332    234566777778888999999999999999876432 4455666666554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.83  E-value=0.0088  Score=46.78  Aligned_cols=184  Identities=11%  Similarity=0.058  Sum_probs=122.8

Q ss_pred             hccchhhHHHHHHHHHhhc--C-CCCCHH-HHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHH---HHHHcccChh
Q 044786           22 FQKDSAGAFELLNHIRKRV--N-IKPTLL-FLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMI---VGYVDVADYQ   94 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~--g-~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li---~~~~~~g~~~   94 (340)
                      ...+.++..+++..+....  | ..|+.. .|..++-+....|+.+.|..+++.+..+-+.++....   --+-..|+++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchh
Confidence            3457778888887776542  4 556654 4556666777889999999988887754333333221   1233468889


Q ss_pred             HHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHH
Q 044786           95 ECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFV  174 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (340)
                      +|+++++..++.+      +.|..++--=+...-..|.--+|++-+....+.- ..|...|.-+.+.|...|++++|.-.
T Consensus       104 ~A~e~y~~lL~dd------pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F-~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen  104 EAIEYYESLLEDD------PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF-MNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hHHHHHHHHhccC------cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh-cCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            9999999998885      5566666655555555666556766666655543 44888899999999999999999999


Q ss_pred             HHHcc--cC-ChhhHHHHHHHHhc---cCchhHHHHHHHHHhhc
Q 044786          175 FSQLK--RH-NTVVWTAKIVNNCR---EGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       175 ~~~~~--~~-~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~  212 (340)
                      ++++.  +| +...+..+...+.-   ..+..-|.++|.+..+.
T Consensus       177 lEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  177 LEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            99875  44 33333344333333   34567788888887764

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.81  E-value=0.00076  Score=47.35  Aligned_cols=96  Identities=13%  Similarity=0.033  Sum_probs=56.6

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCC-CCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CC----cccHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNI-KPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RD----FNSWAVM   83 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~l   83 (340)
                      .++-.+...+.+.|++++|.+.|+.+.+...- +.....+..+...+.+.|+++.|.+.|+.+..  |+    ..++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            34555566666677777777777777654110 11133455566666677777777777766552  22    2235555


Q ss_pred             HHHHHcccChhHHHHHHHHHHHh
Q 044786           84 IVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ...+...|++++|.+.++++...
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            56666667777777777766666

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.

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

Probab=97.81  E-value=8.9e-05  Score=48.59  Aligned_cols=82  Identities=13%  Similarity=0.105  Sum_probs=48.3

Q ss_pred             ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH
Q 044786           90 VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE  169 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (340)
                      .|+++.|+.+++++.+.. ..   .++...+..+..++.+.|++++|..+++. .+.+.. +......+..+|.+.|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~-~~---~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~   75 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELD-PT---NPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYE   75 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHH-CG---THHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HH
T ss_pred             CccHHHHHHHHHHHHHHC-CC---ChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHH
Confidence            467778888888887773 00   11344455567777777777777777766 322221 2233334466677777777


Q ss_pred             HHHHHHHH
Q 044786          170 DADFVFSQ  177 (340)
Q Consensus       170 ~a~~~~~~  177 (340)
                      +|.++|++
T Consensus        76 eAi~~l~~   83 (84)
T PF12895_consen   76 EAIKALEK   83 (84)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            77776654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.80  E-value=0.013  Score=47.93  Aligned_cols=263  Identities=12%  Similarity=0.128  Sum_probs=182.7

Q ss_pred             CCCcchhHHHH---HHhhhccchhhHHHHHHHHHhhcCCCCCHHHHH-HHHHHHHhcCChhHHHHHHhhcCcCCcc----
Q 044786            7 PITTDMYTCLI---KECTFQKDSAGAFELLNHIRKRVNIKPTLLFLN-RLLLMHVSCGQLDTARQLFDEMPLRDFN----   78 (340)
Q Consensus         7 ~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~~~~~~~~----   78 (340)
                      ..|+..|.++.   ..|...|+...|+.=++...+.   +||-..-. .-...+.+.|.++.|..=|+.+.+.++.    
T Consensus        66 e~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel---KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~  142 (504)
T KOG0624|consen   66 EGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL---KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLV  142 (504)
T ss_pred             cCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc---CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchh
Confidence            34555555543   3566778888888888887754   77754332 2235678999999999999998854331    


Q ss_pred             --c------------HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH
Q 044786           79 --S------------WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF  144 (340)
Q Consensus        79 --~------------~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  144 (340)
                        .            ....+..+...|+...|+.....+++..      +-+...+..-..+|...|.+..|+.=++...
T Consensus       143 ~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~------~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~as  216 (504)
T KOG0624|consen  143 LEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ------PWDASLRQARAKCYIAEGEPKKAIHDLKQAS  216 (504)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC------cchhHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence              1            2234556677899999999999999885      6788899999999999999999998877776


Q ss_pred             HcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChh------hHHHH---------HHHHhccCchhHHHHHHHHH
Q 044786          145 KLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTV------VWTAK---------IVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       145 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~l---------i~~~~~~~~~~~a~~~~~~m  209 (340)
                      +..-. +..++..+-..+...|+.+.++...++-.+-|..      .|..+         +......++|.++++-.+..
T Consensus       217 kLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~v  295 (504)
T KOG0624|consen  217 KLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKV  295 (504)
T ss_pred             hcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            66533 5566667778888999999998888876543221      12221         33445678888888888887


Q ss_pred             hhcccCCChhh---HHHHHHhcccCCchhchHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          210 GRERIKKNSYT---FSSVLKACGGVDDDGNCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       210 ~~~~~~p~~~t---~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      .+........+   +..+-.++...+.+.+ +.+......  .+.| |+.++.--.++|.-...++.|..=|+...+
T Consensus       296 lk~ep~~~~ir~~~~r~~c~C~~~d~~~~e-AiqqC~evL--~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  296 LKNEPEETMIRYNGFRVLCTCYREDEQFGE-AIQQCKEVL--DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HhcCCcccceeeeeeheeeecccccCCHHH-HHHHHHHHH--hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            77532212333   3344555666777766 333333333  3455 488888888889888889999988887764

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.79  E-value=0.023  Score=50.40  Aligned_cols=291  Identities=11%  Similarity=0.027  Sum_probs=150.7

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHH------HHHhcCChhHHHHHHhhcCcC--Ccc-cHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLL------MHVSCGQLDTARQLFDEMPLR--DFN-SWA   81 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~------~~~~~~~~~~a~~~~~~~~~~--~~~-~~~   81 (340)
                      ..|..+.-+..-.|+...|..+.+...+.-.-.|+...+.....      ...+.|.+++|.+.+......  |-. .-.
T Consensus       144 a~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e  223 (700)
T KOG1156|consen  144 ASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEE  223 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhh
Confidence            34556666666778888888888888877223466666554443      344567778887777665533  111 223


Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhh-hccchhhHH-HHHHHHHHcCCCCchhHHHHHH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV-CTMNMELGK-QVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      .-...+.+.++.++|..++..++..       .||..-|+..+..+. +..+.-++. .+|....+.-.......... +
T Consensus       224 ~ka~l~~kl~~lEeA~~~y~~Ll~r-------nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlp-l  295 (700)
T KOG1156|consen  224 TKADLLMKLGQLEEAVKVYRRLLER-------NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLP-L  295 (700)
T ss_pred             hHHHHHHHHhhHHhHHHHHHHHHhh-------CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhcc-H
Confidence            3445667788888888888888888       677776666555444 333333333 55555443321110000000 0


Q ss_pred             HHHHhhcCHH-HHHHHHHHcccCC-hhhHHHHHHHHhccCchhHHHHHHHHHh--------hcc----------cCCCh-
Q 044786          160 NFYGKFRCLE-DADFVFSQLKRHN-TVVWTAKIVNNCREGHFHQVFNDFKEMG--------RER----------IKKNS-  218 (340)
Q Consensus       160 ~~~~~~~~~~-~a~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~--------~~~----------~~p~~-  218 (340)
                      +.... .++. ....++..+.+++ +.++..+..-|-.-...+    +++++.        ..|          -+|+. 
T Consensus       296 svl~~-eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~----~le~Lvt~y~~~L~~~~~f~~~D~~~~E~Pttl  370 (700)
T KOG1156|consen  296 SVLNG-EELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVA----FLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTL  370 (700)
T ss_pred             HHhCc-chhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhH----HHHHHHHHHHhhcccccCCCcccccccCCchHH
Confidence            00000 1111 1112222222221 223333333332211111    222221        010          13333 


Q ss_pred             -hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHH
Q 044786          219 -YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLV  294 (340)
Q Consensus       219 -~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~  294 (340)
                       .|+--+...+-..|+++. +..+.+....+  .| -+..|..-.+.+...|++++|..++++..+  .+|...=..-..
T Consensus       371 lWt~y~laqh~D~~g~~~~-A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAK  447 (700)
T KOG1156|consen  371 LWTLYFLAQHYDKLGDYEV-ALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAK  447 (700)
T ss_pred             HHHHHHHHHHHHHcccHHH-HHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHH
Confidence             233445566667777754 66666655543  23 334555555677777888888888877764  344443334444


Q ss_pred             HHHHcCchHHHHHHHHHHHHcCC
Q 044786          295 GYIRNGLYVEATKFLYLMKASGI  317 (340)
Q Consensus       295 ~~~~~~~~~~a~~~~~~m~~~g~  317 (340)
                      =..+..+.++|.++.......|.
T Consensus       448 YmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  448 YMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHccccHHHHHHHHHhhhccc
Confidence            45567777777777766666654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.75  E-value=0.00089  Score=46.98  Aligned_cols=24  Identities=21%  Similarity=0.461  Sum_probs=10.9

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHh
Q 044786           83 MIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +...+.+.|++++|.+.|.++...
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~~~~   31 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAFLKK   31 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            333444444444444444444443

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.

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

Probab=97.75  E-value=0.00014  Score=47.66  Aligned_cols=79  Identities=16%  Similarity=0.121  Sum_probs=59.2

Q ss_pred             ccchhhHHHHHHHHHHcCCC-CchhHHHHHHHHHHhhcCHHHHHHHHHHcc--cCChhhHHHHHHHHhccCchhHHHHHH
Q 044786          130 TMNMELGKQVHGLLFKLGSS-RNISLTGSLINFYGKFRCLEDADFVFSQLK--RHNTVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       130 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                      .|+++.|..+++.+.+.... ++...+..+..+|.+.|++++|..+++...  ..+....-.+..++.+.|++++|++++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            47889999999999887653 355556668999999999999999997722  223344455678888999999999998


Q ss_pred             HH
Q 044786          207 KE  208 (340)
Q Consensus       207 ~~  208 (340)
                      ++
T Consensus        82 ~~   83 (84)
T PF12895_consen   82 EK   83 (84)
T ss_dssp             HH
T ss_pred             hc
Confidence            75

>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=97.75  E-value=0.00032  Score=46.65  Aligned_cols=91  Identities=11%  Similarity=0.092  Sum_probs=52.8

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHc
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVD   89 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~   89 (340)
                      +..+...+...|++++|.+.++...+.  .+.+...+..+...+...+++++|.+.|+....   .+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHH
Confidence            344555556666777777777666654  222335555566666666666666666665442   233345555566666


Q ss_pred             ccChhHHHHHHHHHHH
Q 044786           90 VADYQECITLFAEMMK  105 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~  105 (340)
                      .|+++.|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            6666666666665544

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.69  E-value=0.0014  Score=50.09  Aligned_cols=98  Identities=12%  Similarity=0.274  Sum_probs=71.0

Q ss_pred             HHHHHHc--ccCChhhHHHHHHHHhc-----cCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCC------------
Q 044786          172 DFVFSQL--KRHNTVVWTAKIVNNCR-----EGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVD------------  232 (340)
Q Consensus       172 ~~~~~~~--~~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~------------  232 (340)
                      ...|+..  ..++-.+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.||..+-+..            
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444444  34566667777766664     3556666667777888888888888888888775421            


Q ss_pred             ---chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCC
Q 044786          233 ---DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRL  269 (340)
Q Consensus       233 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  269 (340)
                         .-.+.+..+++.|...|+-||..++..|++.+.+.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               1125588999999999999999999999999977665

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.68  E-value=0.0021  Score=48.61  Aligned_cols=89  Identities=10%  Similarity=0.052  Sum_probs=51.4

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccc-hHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVF-PAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGS  157 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  157 (340)
                      .+..+...+...|++++|...|++.......    .+ ....+..+...+.+.|++++|...++...+.... +...+..
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~  111 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEED----PNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc----cchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHH
Confidence            4555556666667777777777766654200    11 1345666666677777777777777766665422 3444555


Q ss_pred             HHHHHHhhcCHHHHH
Q 044786          158 LINFYGKFRCLEDAD  172 (340)
Q Consensus       158 l~~~~~~~~~~~~a~  172 (340)
                      +...|...|+...+.
T Consensus       112 lg~~~~~~g~~~~a~  126 (172)
T PRK02603        112 IAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHcCChHhHh
Confidence            555666655544433

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

Probab=97.65  E-value=0.0037  Score=51.50  Aligned_cols=88  Identities=10%  Similarity=0.110  Sum_probs=44.9

Q ss_pred             HHHHhhhc-cchhhHHHHHHHHHHc----CCCC--chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---------Chh-h
Q 044786          123 VLKACVCT-MNMELGKQVHGLLFKL----GSSR--NISLTGSLINFYGKFRCLEDADFVFSQLKRH---------NTV-V  185 (340)
Q Consensus       123 ll~~~~~~-~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~-~  185 (340)
                      +...|... |+++.|.+.|+...+.    + .+  -..++..+...+.+.|++++|.++|+++...         ++. .
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~  198 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY  198 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH
Confidence            33444444 6666666666655432    2 11  1234556666677777777777777765321         111 1


Q ss_pred             HHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      |-..+-++...|++..|...+++...
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            22233355556777777777777654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.63  E-value=0.003  Score=51.88  Aligned_cols=142  Identities=13%  Similarity=0.129  Sum_probs=95.1

Q ss_pred             hhHHHHHHHHhccCchhHHHHHHHHHhhcc-cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHH
Q 044786          184 VVWTAKIVNNCREGHFHQVFNDFKEMGRER-IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVD  262 (340)
Q Consensus       184 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~  262 (340)
                      .+|-.+++..-+.+..+.|..+|.+..+.+ +........+.+..++ .++. +.|..+++...+. ++.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~-~~A~~Ife~glk~-f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDP-KRARKIFERGLKK-FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-H-HHHHHHHHHHHHH-HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCH-HHHHHHHHHHHHH-CCCCHHHHHHHHH
Confidence            357777777777777888888888887542 2233333344443332 2333 4478888877764 5667888888889


Q ss_pred             HHhccCCHHHHHHHHHHhhcC-C----cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHH
Q 044786          263 MYGKCRLLRDAERVFELIVDK-K----NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIA  330 (340)
Q Consensus       263 ~~~~~~~~~~A~~~~~~~~~~-~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a  330 (340)
                      .+.+.++.+.|..+|++.... +    ....|...+.-=.+.|+.+.+.++.+++.+.  -|+...+..+++-
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~r  149 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDR  149 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCC
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHH
Confidence            899999999999999988763 2    2358888888888899999999998888765  4444444444443

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.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.63  E-value=0.053  Score=50.06  Aligned_cols=53  Identities=11%  Similarity=0.008  Sum_probs=27.4

Q ss_pred             HhccCCHHHHHHHHHH-hhc---CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          264 YGKCRLLRDAERVFEL-IVD---KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       264 ~~~~~~~~~A~~~~~~-~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      +...|++++|++++.. ..+   ..+...-+.-+..+...++|.+..++..++..+|
T Consensus       200 L~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  200 LELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            3445566666666622 211   1233333444555556666666666666665554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.60  E-value=0.0026  Score=47.96  Aligned_cols=65  Identities=8%  Similarity=-0.020  Sum_probs=34.0

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      .|..+...+...|++++|+..|++........   .....++..+...+...|++++|.+.++...+.
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~---~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDP---YDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccc---hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34445555555566666666666665442000   012235555556666666666666666555544

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.59  E-value=0.0024  Score=52.47  Aligned_cols=141  Identities=11%  Similarity=0.115  Sum_probs=88.6

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH-hhhccchhhHHHHHHHHHHcCCCCchhHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA-CVCTMNMELGKQVHGLLFKLGSSRNISLTGS  157 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  157 (340)
                      +|-.+++..-+.+..+.|.++|.+.++.+      ..+..+|...... +...++.+.|.++|+...+. +..+...+..
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~------~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~   75 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK------RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLE   75 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC------CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC------CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHH
Confidence            46667777777777777777777776442      2223333333333 22235666677777777665 2336666777


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcccC------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhc
Q 044786          158 LINFYGKFRCLEDADFVFSQLKRH------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC  228 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~  228 (340)
                      -++.+.+.++.+.|..+|++....      -...|...+.-=.+.|+.+.+..+.+++.+.  -|+...+..++.-|
T Consensus        76 Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   76 YLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            778888888888888888887543      2346888888888888888888888888773  45555555555554

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.

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

Probab=97.56  E-value=0.0012  Score=56.34  Aligned_cols=101  Identities=11%  Similarity=-0.008  Sum_probs=79.7

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccCh
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADY   93 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~   93 (340)
                      ...+...|+++.|++.|+...+.  -+-+...|..+..+|.+.|++++|+..+++....   +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            45566789999999999999976  3446778888889999999999999999988733   445788888899999999


Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHH
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA  126 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~  126 (340)
                      ++|+..|++....       .|+.......+..
T Consensus        87 ~eA~~~~~~al~l-------~P~~~~~~~~l~~  112 (356)
T PLN03088         87 QTAKAALEKGASL-------APGDSRFTKLIKE  112 (356)
T ss_pred             HHHHHHHHHHHHh-------CCCCHHHHHHHHH
Confidence            9999999999988       4554444444433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.56  E-value=0.027  Score=45.19  Aligned_cols=55  Identities=15%  Similarity=0.094  Sum_probs=35.1

Q ss_pred             HHHHHhcCChhHHHHHHhhcCcCCcc---c---HHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           53 LLMHVSCGQLDTARQLFDEMPLRDFN---S---WAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        53 i~~~~~~~~~~~a~~~~~~~~~~~~~---~---~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      ...+...|++++|.+.|+.+....+.   .   .-.+..++.+.+++++|...+++..+..
T Consensus        39 A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         39 AQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            33445677788888877777643222   1   1234566677778888888887777764

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.55  E-value=0.076  Score=49.83  Aligned_cols=157  Identities=7%  Similarity=-0.074  Sum_probs=72.4

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcc---c--HHHHHHHH
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFN---S--WAVMIVGY   87 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~li~~~   87 (340)
                      |..+-+.|+...+...|.+.|+...+. . .-+......+.+.|++..+++.|..+.-...+.+..   .  |...--.|
T Consensus       495 f~~LG~iYrd~~Dm~RA~kCf~KAFeL-D-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  495 FAFLGQIYRDSDDMKRAKKCFDKAFEL-D-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcC-C-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            444444444444555555555555433 1 113444555555555555555555552222222111   1  11222234


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                      .+.++...|+..|+.....+      +-|...|..+..+|...|++..|.++|.......+...-..| ...-.-+..|.
T Consensus       573 Lea~n~h~aV~~fQsALR~d------PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~f-k~A~~ecd~Gk  645 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTD------PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRF-KEAVMECDNGK  645 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCC------chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHH-HHHHHHHHhhh
Confidence            45555555555555555442      345556666666666666666666666555444322111111 11122334455


Q ss_pred             HHHHHHHHHHc
Q 044786          168 LEDADFVFSQL  178 (340)
Q Consensus       168 ~~~a~~~~~~~  178 (340)
                      +.+|...+..+
T Consensus       646 Ykeald~l~~i  656 (1238)
T KOG1127|consen  646 YKEALDALGLI  656 (1238)
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.54  E-value=0.0015  Score=49.16  Aligned_cols=110  Identities=12%  Similarity=0.010  Sum_probs=73.7

Q ss_pred             hhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--cCC----cccHHHHHHHHHcccChhHHHHH
Q 044786           26 SAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--LRD----FNSWAVMIVGYVDVADYQECITL   99 (340)
Q Consensus        26 ~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~~----~~~~~~li~~~~~~g~~~~a~~~   99 (340)
                      +..+...+..+.+..+-.-....|..+...+...|++++|+..|+...  .++    ..+|..+...+...|++++|++.
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444455555553221333345677788888888999999999999875  222    23688888999999999999999


Q ss_pred             HHHHHHhhcCCccccchHHHHHHHHHHhh-------hccchhhHHHHHH
Q 044786          100 FAEMMKRKKGHMLLVFPAWIIVCVLKACV-------CTMNMELGKQVHG  141 (340)
Q Consensus       100 ~~~m~~~~~~~~~~~~~~~~~~~ll~~~~-------~~~~~~~a~~~~~  141 (340)
                      +++.....      +....++..+...+.       ..|+++.|...++
T Consensus        95 ~~~Al~~~------~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033         95 YFQALERN------PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHHhC------cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHH
Confidence            99998773      333445555555555       5556555544444

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

Probab=97.52  E-value=0.009  Score=49.25  Aligned_cols=130  Identities=8%  Similarity=-0.001  Sum_probs=60.6

Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc----CCC-CchhHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL----GSS-RNISLT  155 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~  155 (340)
                      .-....|-..+++++|.+.|.+.............-...|......+.+. ++++|...++...+.    |-. .-...+
T Consensus        39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~  117 (282)
T PF14938_consen   39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCL  117 (282)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHH
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            33445566666777777666665443211100011122333333333333 555665555544321    210 012244


Q ss_pred             HHHHHHHHhh-cCHHHHHHHHHHcccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          156 GSLINFYGKF-RCLEDADFVFSQLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       156 ~~l~~~~~~~-~~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      ..+...|... |++++|.+.|++..+-         -..++..+...+.+.|++++|.++|++...
T Consensus       118 ~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  118 KELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4555556665 6666666666654311         122345555666666677777777766654

>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=97.51  E-value=0.0005  Score=42.86  Aligned_cols=62  Identities=18%  Similarity=0.157  Sum_probs=45.5

Q ss_pred             hccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHH
Q 044786          265 GKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLR  328 (340)
Q Consensus       265 ~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll  328 (340)
                      .+.|++++|.++|+.+.. .| +...+-.+..+|.+.|++++|.++++++...  .|+...+..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            456888888888888765 34 6777778888888888888888888888766  45555555544

...

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.50  E-value=0.014  Score=54.39  Aligned_cols=97  Identities=12%  Similarity=0.104  Sum_probs=60.4

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ......+.+.|++..+++.|..+.-..-+......-...|....-.|...+++..|..-|+....   .|...|..+..+
T Consensus       526 aeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeA  605 (1238)
T KOG1127|consen  526 AEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEA  605 (1238)
T ss_pred             hhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHH
Confidence            44566777888888888888887322222100001112233333345666777778777776653   355567778888


Q ss_pred             HHcccChhHHHHHHHHHHHh
Q 044786           87 YVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~  106 (340)
                      |.+.|++..|+++|.+....
T Consensus       606 Y~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  606 YPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             HHhcCceehHHHhhhhhHhc
Confidence            88888888888888777655

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.49  E-value=0.007  Score=54.09  Aligned_cols=59  Identities=12%  Similarity=-0.126  Sum_probs=28.9

Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      ..|..+.-.....|++++|...+++.....  |+...|..+...+...|+.++|.+.+++.
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444333334455555555555554443  24445555555555555555555555544

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

Probab=97.45  E-value=0.0036  Score=53.35  Aligned_cols=87  Identities=10%  Similarity=0.013  Sum_probs=49.9

Q ss_pred             HHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc
Q 044786           55 MHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM  131 (340)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (340)
                      .+...|++++|++.|++....   +...|..+..+|.+.|++++|+..+++.+...      +.+...|..+..++...|
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~------P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD------PSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------cCCHHHHHHHHHHHHHhC
Confidence            344556666666666665522   33345555566666666666666666666553      334445555666666666


Q ss_pred             chhhHHHHHHHHHHcC
Q 044786          132 NMELGKQVHGLLFKLG  147 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~  147 (340)
                      ++++|...|+...+..
T Consensus        85 ~~~eA~~~~~~al~l~  100 (356)
T PLN03088         85 EYQTAKAALEKGASLA  100 (356)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            6666666666665543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.45  E-value=0.0097  Score=53.22  Aligned_cols=139  Identities=6%  Similarity=-0.102  Sum_probs=91.8

Q ss_pred             CCcccHHHHHHHHHcc-----cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc--------chhhHHHHHH
Q 044786           75 RDFNSWAVMIVGYVDV-----ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM--------NMELGKQVHG  141 (340)
Q Consensus        75 ~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~  141 (340)
                      .|...|...+++....     ++...|..+|++..+.+      +-....+..+..++....        ++..+.+..+
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld------P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE------PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            4667888888875432     23678999999999883      233445554444333322        1223333333


Q ss_pred             HHHHcC-CCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc--cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh
Q 044786          142 LLFKLG-SSRNISLTGSLINFYGKFRCLEDADFVFSQLK--RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS  218 (340)
Q Consensus       142 ~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  218 (340)
                      ...... ...+...|..+.-.....|++++|...+++..  .++...|..+...+...|+.++|.+.+++....  .|..
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~  486 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGE  486 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCC
Confidence            333321 23355677777666667799999999999875  456777888889999999999999999888763  5665


Q ss_pred             hhH
Q 044786          219 YTF  221 (340)
Q Consensus       219 ~t~  221 (340)
                      .||
T Consensus       487 pt~  489 (517)
T PRK10153        487 NTL  489 (517)
T ss_pred             chH
Confidence            555

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.45  E-value=0.051  Score=45.37  Aligned_cols=105  Identities=16%  Similarity=0.036  Sum_probs=54.3

Q ss_pred             HHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHh
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYG  265 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  265 (340)
                      .+..|.-+...|+...|.++-++..    .|+..-|...+.+++..+++++ ...+.   ..   +-++.-|..++..|.
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~e-L~~fa---~s---kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDE-LEKFA---KS---KKSPIGYEPFVEACL  248 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHH-HHHHH---hC---CCCCCChHHHHHHHH
Confidence            3444555555566555555544442    3555555666666666666543 22221   11   123355555666666


Q ss_pred             ccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHH
Q 044786          266 KCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKF  308 (340)
Q Consensus       266 ~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  308 (340)
                      +.|+..+|..+..++.       +..-+..|.+.|++.+|.+.
T Consensus       249 ~~~~~~eA~~yI~k~~-------~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  249 KYGNKKEASKYIPKIP-------DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HCCCHHHHHHHHHhCC-------hHHHHHHHHHCCCHHHHHHH
Confidence            6666666666665532       23345555666666665544

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.44  E-value=0.0038  Score=47.25  Aligned_cols=110  Identities=8%  Similarity=0.001  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcCc--CC----cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHH
Q 044786           47 LFLNRLLLMHVSCGQLDTARQLFDEMPL--RD----FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII  120 (340)
Q Consensus        47 ~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~  120 (340)
                      ..+..+...+...|++++|...|++...  ++    ...+..+...+.+.|++++|...+++.....      +-+...+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~------p~~~~~~  109 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN------PKQPSAL  109 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------cccHHHH
Confidence            3444555555555666666655555441  11    1244555555555566666666665555542      3334444


Q ss_pred             HHHHHHhhhccc--------------hhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786          121 VCVLKACVCTMN--------------MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus       121 ~~ll~~~~~~~~--------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      ..+...+...|+              +++|.++++.....+..    .|..++..+...|
T Consensus       110 ~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~----~~~~~~~~~~~~~  165 (172)
T PRK02603        110 NNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPN----NYIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCch----hHHHHHHHHHhcC
Confidence            444555544443              67777777777766522    1444444444444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.42  E-value=0.0039  Score=45.36  Aligned_cols=96  Identities=13%  Similarity=0.144  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHH
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      ....-.+-..+...|++++|..+|+.+..-   +..-|-.|.-++-..|++++|+..|......+      +-+...+-.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~------~ddp~~~~~  108 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK------IDAPQAPWA  108 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC------CCCchHHHH
Confidence            344445566678899999999999988743   34457778888888999999999999998885      567778888


Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcC
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      +..++...|+.+.|.+.|+......
T Consensus       109 ag~c~L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        109 AAECYLACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            9999999999999999998777653

>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=97.37  E-value=0.0016  Score=47.80  Aligned_cols=70  Identities=11%  Similarity=0.110  Sum_probs=53.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHH-----HcCCccchhHHH
Q 044786          256 VQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMK-----ASGIQIQESLIN  325 (340)
Q Consensus       256 ~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~t~~  325 (340)
                      +...++..+...|+++.|.++.+.+.. .| +...|..+|.+|...|+..+|+++|+++.     +.|+.|++.|-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            455678888899999999999999886 34 88899999999999999999999999874     459999987754

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.36  E-value=0.096  Score=47.54  Aligned_cols=109  Identities=10%  Similarity=-0.016  Sum_probs=70.4

Q ss_pred             HHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHh
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYG  265 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  265 (340)
                      .+--+.-+...|+..+|.++-++.+    -||-..|..-+.+++..+++++ .+++   ..+.   -.+.-|...+.+|.
T Consensus       687 l~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kwee-Lekf---Aksk---ksPIGy~PFVe~c~  755 (829)
T KOG2280|consen  687 LHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEE-LEKF---AKSK---KSPIGYLPFVEACL  755 (829)
T ss_pred             HHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHH-HHHH---Hhcc---CCCCCchhHHHHHH
Confidence            3444555666677777776666554    4777777777777777777644 3222   2221   12555667778888


Q ss_pred             ccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHH
Q 044786          266 KCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYL  311 (340)
Q Consensus       266 ~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  311 (340)
                      +.|+.++|.+++.+....+      -...+|.+.|++.+|.++--+
T Consensus       756 ~~~n~~EA~KYiprv~~l~------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVGGLQ------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hcccHHHHhhhhhccCChH------HHHHHHHHhccHHHHHHHHHH
Confidence            8888888888887774322      456677888888877765443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.35  E-value=0.048  Score=42.83  Aligned_cols=71  Identities=11%  Similarity=0.091  Sum_probs=31.2

Q ss_pred             hcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhc
Q 044786          165 FRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  236 (340)
                      .|++++|.++|+.+.+.   |.+++--=+...-..|+.-+|++-+.+..+. +..|...|.-+-..|...|++.+
T Consensus        99 ~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~k  172 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEK  172 (289)
T ss_pred             hhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHH
Confidence            34555555555554432   2233333333333344444444444444332 33344555555555555555544

>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=97.34  E-value=0.0015  Score=40.75  Aligned_cols=64  Identities=19%  Similarity=0.134  Sum_probs=40.9

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc-chhhHHHHHHHHHHc
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM-NMELGKQVHGLLFKL  146 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~  146 (340)
                      ..+|..+...+...|++++|+..|++..+..      +-+...|..+..++...| ++++|.+.++...+.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~------p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD------PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS------TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC------CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            3456666666667777777777777776663      345556666666666666 566666666665543

...

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

Probab=97.33  E-value=0.0019  Score=39.76  Aligned_cols=56  Identities=18%  Similarity=0.135  Sum_probs=48.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhcC-C-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          260 LVDMYGKCRLLRDAERVFELIVDK-K-NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       260 li~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +...+.+.|++++|.+.|+.+... | +...|..+...+...|++++|..+|++..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456688899999999999999873 4 7788999999999999999999999998755

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.32  E-value=0.096  Score=45.78  Aligned_cols=116  Identities=12%  Similarity=0.095  Sum_probs=88.1

Q ss_pred             hHHHHHHhcccCCchhchHHHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-CcHHHH-HHHHHHH
Q 044786          220 TFSSVLKACGGVDDDGNCGRQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVDK-KNIASW-NAMLVGY  296 (340)
Q Consensus       220 t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~~~~-~~li~~~  296 (340)
                      +|...+..-.+...+ +++..+|....+.+..+ ++.+++++|+-||. ++..-|.++|+.-..+ +|...| ...+.-+
T Consensus       368 v~~~~mn~irR~eGl-kaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGL-KAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGDSPEYVLKYLDFL  445 (656)
T ss_pred             ehhHHHHHHHHhhhH-HHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            344455554555555 55889999998888777 88899999988875 7889999999875543 555444 5677778


Q ss_pred             HHcCchHHHHHHHHHHHHcCCccch--hHHHHHHHHhhhcCcc
Q 044786          297 IRNGLYVEATKFLYLMKASGIQIQE--SLINDLRIACSSISAS  337 (340)
Q Consensus       297 ~~~~~~~~a~~~~~~m~~~g~~~~~--~t~~~ll~a~~~~g~~  337 (340)
                      ...++-..|..+|++....++.|+.  ..|..+|.-=++.|+.
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            8889999999999999998777665  6888888877777764

>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=97.27  E-value=0.0015  Score=40.60  Aligned_cols=52  Identities=25%  Similarity=0.153  Sum_probs=38.3

Q ss_pred             hhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc
Q 044786           21 TFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL   74 (340)
Q Consensus        21 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   74 (340)
                      .+.|++++|.++|+.+...  .+-+...+..+..+|.+.|++++|.++++.+..
T Consensus         2 l~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3567888888888888766  344677777788888888888888888887774

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.25  E-value=0.026  Score=44.55  Aligned_cols=140  Identities=11%  Similarity=0.073  Sum_probs=100.5

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHH--
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGS--  157 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--  157 (340)
                      .+.++..+.-.+.+.-....+++.++..  .   +.+......+++...+.||.+.|...|+...+..-..+..+.+.  
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~--~---e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V  254 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYY--P---EQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMV  254 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhC--C---cccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHH
Confidence            4566777777788888999999998873  2   45666778888999999999999999998776543334434333  


Q ss_pred             ---HHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHH
Q 044786          158 ---LINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLK  226 (340)
Q Consensus       158 ---l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  226 (340)
                         ....|.-++++.+|...|+++...   +++.-|.-.-+..-.|+..+|++.++.|.+.  .|...+-++++-
T Consensus       255 ~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~  327 (366)
T KOG2796|consen  255 LMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLF  327 (366)
T ss_pred             HhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHH
Confidence               334566678888999999887754   4455555444555578999999999999885  465555554443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.23  E-value=0.02  Score=40.06  Aligned_cols=108  Identities=8%  Similarity=-0.085  Sum_probs=58.5

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC--chhHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR--NISLTGSLIN  160 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  160 (340)
                      +..++-..|+.++|+.+|++....  |++. ..-...+..+..++...|++++|..+++........+  +......+.-
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~--gL~~-~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al   83 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAA--GLSG-ADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLAL   83 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc--CCCc-hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHH
Confidence            344556677777777777777776  3310 1113355566677777777777777777666543220  1111222233


Q ss_pred             HHHhhcCHHHHHHHHHHcccCChhhHHHHHHHH
Q 044786          161 FYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNN  193 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~  193 (340)
                      ++...|+.++|.+.+-...-++...|.--|..|
T Consensus        84 ~L~~~gr~~eAl~~~l~~la~~~~~y~ra~~~y  116 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEALAETLPRYRRAIRFY  116 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666665554444433444333333

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.22  E-value=0.0082  Score=50.32  Aligned_cols=284  Identities=9%  Similarity=-0.046  Sum_probs=141.9

Q ss_pred             cchhHHHHH--HhhhccchhhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcC-------cC-
Q 044786           10 TDMYTCLIK--ECTFQKDSAGAFELLNHIRKRVNIKPT----LLFLNRLLLMHVSCGQLDTARQLFDEMP-------LR-   75 (340)
Q Consensus        10 ~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~-------~~-   75 (340)
                      ...|...+.  -+|+.|+......+|+...+. |-. |    ..+|..|-++|.-.+++++|+++...=.       .+ 
T Consensus        15 ~SCleLalEGERLck~gdcraGv~ff~aA~qv-GTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdkl   92 (639)
T KOG1130|consen   15 RSCLELALEGERLCKMGDCRAGVDFFKAALQV-GTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKL   92 (639)
T ss_pred             hHHHHHHHHHHHHHhccchhhhHHHHHHHHHh-cch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchh
Confidence            344444444  368999999999999999988 643 3    3456777778888889999988753211       11 


Q ss_pred             -CcccHHHHHHHHHcccChhHHHHHHHH----HHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC
Q 044786           76 -DFNSWAVMIVGYVDVADYQECITLFAE----MMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR  150 (340)
Q Consensus        76 -~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  150 (340)
                       ...+...|-..+--.|.+++|+.+-.+    ..+.+..    ......+..+...|...|..-....    -.+.|-.+
T Consensus        93 GEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDr----v~e~RAlYNlgnvYhakGk~~g~~~----pee~g~f~  164 (639)
T KOG1130|consen   93 GEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDR----VLESRALYNLGNVYHAKGKCTGLEA----PEEKGAFN  164 (639)
T ss_pred             ccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHH----HhhhHHHhhhhhhhhhcccccCCCC----hhhccccc
Confidence             122333344455556777776654332    2222211    2445566667777665553210000    00001111


Q ss_pred             chhHHHHHHHHHHhhcCHHHHHHHHHH-------cccC--ChhhHHHHHHHHhccCchhHHHHHHHHHh----hcccCC-
Q 044786          151 NISLTGSLINFYGKFRCLEDADFVFSQ-------LKRH--NTVVWTAKIVNNCREGHFHQVFNDFKEMG----RERIKK-  216 (340)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~-------~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~~p-  216 (340)
                      ..++           ..++.|.+.|.+       ...+  -...|..|...|.-.|++++|+..-+.=.    +-|-+. 
T Consensus       165 ~ev~-----------~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAa  233 (639)
T KOG1130|consen  165 AEVT-----------SALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAA  233 (639)
T ss_pred             HHHH-----------HHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHH
Confidence            1100           001111222111       1111  11234444445555555555554433211    111111 


Q ss_pred             ChhhHHHHHHhcccCCchhchHHHHH---HHHHHhCC-CccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--------CC
Q 044786          217 NSYTFSSVLKACGGVDDDGNCGRQMH---ANIVKIGL-ESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--------KK  284 (340)
Q Consensus       217 ~~~t~~~ll~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------~~  284 (340)
                      ....+..+-.++.-.|.++.+++.+.   ...++.|- .....+.-+|-..|.-..+++.|..++++-..        -.
T Consensus       234 eRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriG  313 (639)
T KOG1130|consen  234 ERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIG  313 (639)
T ss_pred             HHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            11234444455555555543222211   11122221 12344555666667666777778777765432        14


Q ss_pred             cHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          285 NIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       285 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      ....+.+|..+|...|..++|+...+.-.+
T Consensus       314 e~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  314 ELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             hHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            556777888888888888888877665443

>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=97.22  E-value=0.0034  Score=39.16  Aligned_cols=63  Identities=17%  Similarity=0.177  Sum_probs=54.1

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcC-chHHHHHHHHHHHHc
Q 044786          253 DEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNG-LYVEATKFLYLMKAS  315 (340)
Q Consensus       253 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~  315 (340)
                      ++.+|..+-..+.+.|++++|...|++...  +.+...|..+..+|.+.| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            456788888999999999999999999876  347788999999999999 799999999887653

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.19  E-value=0.082  Score=42.42  Aligned_cols=194  Identities=12%  Similarity=0.112  Sum_probs=98.5

Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      .....+...|++++|.+.|+++.....+.   +.-....-.+..++.+.+++++|...+++..+..+.....-|...+.+
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s---~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g  113 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFG---PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRG  113 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHH
Confidence            34445566788888888888888773111   111112245566777777788888777777766443322233222222


Q ss_pred             HHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHH-
Q 044786          162 YGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ-  240 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~-  240 (340)
                      .+....   ....+......+.        .........+|+..|+++++.  -|+..             -..+ +.. 
T Consensus       114 ~~~~~~---~~~~~~~~~~~~~--------~~rD~~~~~~A~~~~~~li~~--yP~S~-------------ya~~-A~~r  166 (243)
T PRK10866        114 LTNMAL---DDSALQGFFGVDR--------SDRDPQHARAAFRDFSKLVRG--YPNSQ-------------YTTD-ATKR  166 (243)
T ss_pred             Hhhhhc---chhhhhhccCCCc--------cccCHHHHHHHHHHHHHHHHH--CcCCh-------------hHHH-HHHH
Confidence            221000   0000000000000        000001123455555555553  23321             1112 221 


Q ss_pred             ---HHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C----cHHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          241 ---MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K----NIASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       241 ---~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~----~~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                         +.+.+.+..        -.+...|.+.|.+..|..-++.+..+ |    .......++.+|...|..++|.++...+
T Consensus       167 l~~l~~~la~~e--------~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        167 LVFLKDRLAKYE--------LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHHHH--------HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence               222222211        14566688888888888888777753 2    3445667778888889888888877665


Q ss_pred             H
Q 044786          313 K  313 (340)
Q Consensus       313 ~  313 (340)
                      .
T Consensus       239 ~  239 (243)
T PRK10866        239 A  239 (243)
T ss_pred             h
Confidence            4

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

Probab=97.19  E-value=0.002  Score=39.65  Aligned_cols=56  Identities=13%  Similarity=0.041  Sum_probs=29.3

Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      ..+...|++++|.+.|++..+..      +-+...+..+..++...|++++|...|+.+.+.
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD------PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34455555555555555555542      224445555555555555555555555555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.14  E-value=0.016  Score=40.51  Aligned_cols=104  Identities=8%  Similarity=-0.064  Sum_probs=69.7

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHcCCCCc--hhHHHHHHHHHHhhcCHHHHHHHHHHccc--CC----hhhHHHHHHHH
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKLGSSRN--ISLTGSLINFYGKFRCLEDADFVFSQLKR--HN----TVVWTAKIVNN  193 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~li~~~  193 (340)
                      .+..++-..|+.++|..+|+.....|+...  ...+-.+...|...|++++|..++++...  |+    ......+..++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            344566678899999999999999887654  33555677788888899999888887653  22    12222233466


Q ss_pred             hccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcc
Q 044786          194 CREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACG  229 (340)
Q Consensus       194 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~  229 (340)
                      ...|+.++|+..+-....    ++...|..-|..|+
T Consensus        86 ~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            678888888888766543    33335655555543

>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=97.06  E-value=0.003  Score=40.57  Aligned_cols=67  Identities=7%  Similarity=-0.003  Sum_probs=44.6

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch-HHHHHHHHHHhhhccchhhHHHHHHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP-AWIIVCVLKACVCTMNMELGKQVHGLLFK  145 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  145 (340)
                      +|+.+...|...|++++|+..|++..+.......-.|. ..++..+...+...|++++|.+.+++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56777788888888888888888877552111111232 55777777788888888888887776543

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.05  E-value=0.15  Score=42.72  Aligned_cols=86  Identities=9%  Similarity=0.168  Sum_probs=65.6

Q ss_pred             hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHH
Q 044786          219 YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIR  298 (340)
Q Consensus       219 ~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~  298 (340)
                      .+.+..|.-+...|.... |..+...   .. -|+..-|...+.+|+..+++++-+++...   +..+.-|..++.+|.+
T Consensus       178 ~Sl~~Ti~~li~~~~~k~-A~kl~k~---Fk-v~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQ-AEKLKKE---FK-VPDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLK  249 (319)
T ss_pred             CCHHHHHHHHHHCCCHHH-HHHHHHH---cC-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHH
Confidence            345555666666776533 5555433   33 47889999999999999999998887653   4566889999999999


Q ss_pred             cCchHHHHHHHHHH
Q 044786          299 NGLYVEATKFLYLM  312 (340)
Q Consensus       299 ~~~~~~a~~~~~~m  312 (340)
                      .|+..+|..+..++
T Consensus       250 ~~~~~eA~~yI~k~  263 (319)
T PF04840_consen  250 YGNKKEASKYIPKI  263 (319)
T ss_pred             CCCHHHHHHHHHhC
Confidence            99999999988874

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.04  E-value=0.05  Score=43.04  Aligned_cols=131  Identities=13%  Similarity=0.048  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHH-
Q 044786          184 VVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVD-  262 (340)
Q Consensus       184 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~-  262 (340)
                      .+.+.++....-.|.+.-...++++..+...+-++...+.+...-.+.|+. ++++..++...+..-+.+..+.+.++. 
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~-k~a~~yf~~vek~~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDI-KTAEKYFQDVEKVTQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccH-HHHHHHHHHHHHHHhhhhccchhHHHHh
Confidence            344556666666667777777777776654444555556666666677776 446666666655544444444444333 


Q ss_pred             ----HHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          263 ----MYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       263 ----~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                          .|.-++++..|...+.++..  +.|+..-|.-.-+..-.|+..+|++.++.|.+.
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence                33445666777777766654  234444444433444456777777777777655

>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=97.03  E-value=0.0043  Score=39.83  Aligned_cols=61  Identities=20%  Similarity=0.203  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhhc-----C---Cc-HHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          254 EYVQCGLVDMYGKCRLLRDAERVFELIVD-----K---KN-IASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       254 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      ..+|+.+...|...|++++|...|++...     .   |+ ..+++.+...|...|++++|++.+++-.+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45788899999999999999999988764     1   33 56788899999999999999999988643

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.02  E-value=0.25  Score=44.81  Aligned_cols=125  Identities=12%  Similarity=0.008  Sum_probs=68.2

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHH------HHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLL------LMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li------~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      .|-+..|..+.......-.++.|...|-+.....|++.-...-...-      ..-+--|++++|++++-++..+|..  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrDLA--  766 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRDLA--  766 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhhhh--
Confidence            46677888888887777788888888877665444432111111111      1122348899999998888877654  


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVH  140 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  140 (340)
                         |..+.+.|+|-.+.++++.   .+ +-..-..-...|+.+...++....+++|.+.|
T Consensus       767 ---ielr~klgDwfrV~qL~r~---g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY  819 (1189)
T KOG2041|consen  767 ---IELRKKLGDWFRVYQLIRN---GG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYY  819 (1189)
T ss_pred             ---HHHHHhhhhHHHHHHHHHc---cC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               4445555666555554432   11 11000112234555555555555555555444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.01  E-value=0.062  Score=40.20  Aligned_cols=154  Identities=9%  Similarity=0.044  Sum_probs=106.5

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc----CCcccHHHHHHHHHccc
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL----RDFNSWAVMIVGYVDVA   91 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~g   91 (340)
                      +..+..+.=|.+....=...-.   ...|+...--.|.....+.|+..+|...|++...    .|....-.+.++....+
T Consensus        62 ~~~a~~q~ldP~R~~Rea~~~~---~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~  138 (251)
T COG4700          62 LLMALQQKLDPERHLREATEEL---AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQ  138 (251)
T ss_pred             HHHHHHHhcChhHHHHHHHHHH---hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhc
Confidence            3444444445544433222222   4577888888888999999999999999988763    46666667778888889


Q ss_pred             ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHH
Q 044786           92 DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus        92 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      ++..|...++.+.+..  +..-.||  +.-.+.+.+...|.+.+|..-|+.....-..|....|.  ...+.+.|+.+++
T Consensus       139 ~~A~a~~tLe~l~e~~--pa~r~pd--~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y--~e~La~qgr~~ea  212 (251)
T COG4700         139 EFAAAQQTLEDLMEYN--PAFRSPD--GHLLFARTLAAQGKYADAESAFEVAISYYPGPQARIYY--AEMLAKQGRLREA  212 (251)
T ss_pred             cHHHHHHHHHHHhhcC--CccCCCC--chHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHH--HHHHHHhcchhHH
Confidence            9999999999988773  2112333  34566788888999999999999999886666555544  3456778877776


Q ss_pred             HHHHHHc
Q 044786          172 DFVFSQL  178 (340)
Q Consensus       172 ~~~~~~~  178 (340)
                      ..-+.++
T Consensus       213 ~aq~~~v  219 (251)
T COG4700         213 NAQYVAV  219 (251)
T ss_pred             HHHHHHH
Confidence            5544443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.99  E-value=0.013  Score=47.08  Aligned_cols=99  Identities=12%  Similarity=0.084  Sum_probs=75.9

Q ss_pred             HhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC---hhhHHHHHHHHhccCchhHH
Q 044786          126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN---TVVWTAKIVNNCREGHFHQV  202 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a  202 (340)
                      -..+.+++.+|...|.+..+.... |.+.|..=..+|++.|.++.|.+-.+....-|   ..+|..|-.+|...|++++|
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            345667888888888888877644 66667777888888898888888777766544   34688888899999999999


Q ss_pred             HHHHHHHhhcccCCChhhHHHHHHh
Q 044786          203 FNDFKEMGRERIKKNSYTFSSVLKA  227 (340)
Q Consensus       203 ~~~~~~m~~~~~~p~~~t~~~ll~~  227 (340)
                      ++.|++..+  +.|+-.+|-.=|..
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHHH
Confidence            999888877  67887777655544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.98  E-value=0.015  Score=47.09  Aligned_cols=83  Identities=8%  Similarity=-0.057  Sum_probs=37.8

Q ss_pred             ccchhhHHHHHHHHHHcCCCCc--hhHHHHHHHHHHhhcCHHHHHHHHHHccc--C----ChhhHHHHHHHHhccCchhH
Q 044786          130 TMNMELGKQVHGLLFKLGSSRN--ISLTGSLINFYGKFRCLEDADFVFSQLKR--H----NTVVWTAKIVNNCREGHFHQ  201 (340)
Q Consensus       130 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~----~~~~~~~li~~~~~~~~~~~  201 (340)
                      .|++++|...|+.+.+..+...  ...+..+...|...|++++|...|+.+.+  |    ....+-.+...+...|+.++
T Consensus       156 ~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~  235 (263)
T PRK10803        156 KSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAK  235 (263)
T ss_pred             cCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHH
Confidence            3444444444444444322111  12333444555555555555555555442  1    11223333444555666666


Q ss_pred             HHHHHHHHhhc
Q 044786          202 VFNDFKEMGRE  212 (340)
Q Consensus       202 a~~~~~~m~~~  212 (340)
                      |..+|+++.+.
T Consensus       236 A~~~~~~vi~~  246 (263)
T PRK10803        236 AKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHH
Confidence            66666666553

>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=96.98  E-value=0.0059  Score=44.77  Aligned_cols=71  Identities=11%  Similarity=0.128  Sum_probs=52.5

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH-----HcCCCCchh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF-----KLGSSRNIS  153 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~  153 (340)
                      ....++..+...|++++|.++.+.+....      +.+...|..+|.++...|+...|.+.|+.+.     +.|+.|+..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d------P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~  137 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD------PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS------TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC------CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHH
Confidence            45556777788999999999999999885      6778899999999999999999999998764     358888876


Q ss_pred             HH
Q 044786          154 LT  155 (340)
Q Consensus       154 ~~  155 (340)
                      +-
T Consensus       138 ~~  139 (146)
T PF03704_consen  138 TR  139 (146)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.92  E-value=0.017  Score=46.71  Aligned_cols=97  Identities=9%  Similarity=-0.014  Sum_probs=47.0

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC--CchhHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS--RNISLTGS  157 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~  157 (340)
                      |+..+..+.+.|++++|...|+.+.+....-   ......+..+...+...|++++|...|+.+.+.-..  .....+-.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s---~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDS---TYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC---cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            4444433344555666666666655552000   001234455555555666666666666555543211  12223333


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcc
Q 044786          158 LINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      +...+...|+.++|...|+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi  244 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVI  244 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            4445555566666666666554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.85  E-value=0.015  Score=46.67  Aligned_cols=101  Identities=8%  Similarity=-0.009  Sum_probs=72.3

Q ss_pred             HHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc
Q 044786           55 MHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM  131 (340)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (340)
                      -+.+.+++.+|+..|....   ..|.+-|..=..+|++.|.++.|++-.+..+..+      +....+|..|..++...|
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD------p~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID------PHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC------hHHHHHHHHHHHHHHccC
Confidence            3567788888888887765   2466667777778888888888888777777664      445568888888888888


Q ss_pred             chhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786          132 NMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      ++++|.+.|+..++..  |+..+|-.=+....
T Consensus       164 k~~~A~~aykKaLeld--P~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELD--PDNESYKSNLKIAE  193 (304)
T ss_pred             cHHHHHHHHHhhhccC--CCcHHHHHHHHHHH
Confidence            8888888888888874  44456655444443

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.77  E-value=0.047  Score=38.64  Aligned_cols=48  Identities=17%  Similarity=0.099  Sum_probs=27.5

Q ss_pred             CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc-CCccchhHHHHHHHHh
Q 044786          284 KNIASWNAMLVGYIRNGLYVEATKFLYLMKAS-GIQIQESLINDLRIAC  331 (340)
Q Consensus       284 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~t~~~ll~a~  331 (340)
                      |+..+..+++.+|+..+++..|+++++..... ++..+..+|..|+.=+
T Consensus        50 Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   50 PTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            45555666666666666666666666654333 5555555666555533

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.71  E-value=0.029  Score=39.68  Aligned_cols=52  Identities=8%  Similarity=-0.013  Sum_probs=28.9

Q ss_pred             CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhc
Q 044786           75 RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCT  130 (340)
Q Consensus        75 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (340)
                      |+..+..+++.+|+..|++..|+++++...+.- ++   +.+..+|..|+..+...
T Consensus        50 Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y-~I---~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   50 PTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY-PI---PIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             CCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc-CC---CCCHHHHHHHHHHHHHh
Confidence            344455566666666666666666666665554 33   44455566655555433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.70  E-value=0.014  Score=36.77  Aligned_cols=61  Identities=16%  Similarity=0.110  Sum_probs=49.9

Q ss_pred             HHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHH
Q 044786          262 DMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLI  324 (340)
Q Consensus       262 ~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~  324 (340)
                      ..|.+.+++++|.++++.+..  +.++..|......+.+.|++++|.+.|++..+.+  |+..+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~--p~~~~~   65 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS--PDDPDA   65 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC--CCcHHH
Confidence            567889999999999999886  3467778888899999999999999999998664  444433

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.68  E-value=0.39  Score=42.05  Aligned_cols=221  Identities=10%  Similarity=0.039  Sum_probs=133.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcCcC--CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCc--cccchHHHHHHHH
Q 044786           49 LNRLLLMHVSCGQLDTARQLFDEMPLR--DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHM--LLVFPAWIIVCVL  124 (340)
Q Consensus        49 ~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~~~~~~ll  124 (340)
                      ...+.++..+..+++.|++-+.....-  ++.-++....+|...|.+.++...-+...+.| +..  .+..-...+..+.
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~g-re~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVG-RELRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHh-HHHHHHHHHHHHHHHHhh
Confidence            456777777778888888888776643  33346666777888888877777766666554 110  0011112223344


Q ss_pred             HHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc--cCChh-hHHHHHHHHhccCchhH
Q 044786          125 KACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK--RHNTV-VWTAKIVNNCREGHFHQ  201 (340)
Q Consensus       125 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~-~~~~li~~~~~~~~~~~  201 (340)
                      .++.+.++++.+...|...+.....|+.         ..+....+++....+...  .|... -...=...+.+.|++..
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHH
Confidence            4666677888888888886665544443         223333444444443322  22211 11222567788999999


Q ss_pred             HHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          202 VFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       202 a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      |+..|.++.+.. +-|...|+.--.+|.+.+.+.++...... ..+. -++....|.-=..++....+++.|.+.|++..
T Consensus       377 Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~-~ieL-~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  377 AVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKK-CIEL-DPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHH-HHhc-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999998864 34577899988899999998764444322 2222 12233344333444555667888888888877


Q ss_pred             c
Q 044786          282 D  282 (340)
Q Consensus       282 ~  282 (340)
                      .
T Consensus       454 e  454 (539)
T KOG0548|consen  454 E  454 (539)
T ss_pred             h
Confidence            5

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

Probab=96.68  E-value=0.21  Score=38.92  Aligned_cols=55  Identities=18%  Similarity=0.153  Sum_probs=27.4

Q ss_pred             HhhhccchhhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcC
Q 044786           19 ECTFQKDSAGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMP   73 (340)
Q Consensus        19 ~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~   73 (340)
                      .+...|++.+|.+.|+.+...+.-.| -....-.+..++-+.|+++.|...|+++.
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi   69 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFI   69 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34456666666666666665421111 12333344555556666666666665554

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

Probab=96.62  E-value=0.15  Score=41.24  Aligned_cols=99  Identities=9%  Similarity=-0.099  Sum_probs=76.0

Q ss_pred             cchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc---CHHHHHHHHHHcccC---ChhhHH
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR---CLEDADFVFSQLKRH---NTVVWT  187 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~---~~~~~~  187 (340)
                      +-|...|-.|..+|...|+.+.|..-|....+...+ ++..+..+.+++....   .-.++..+|+++...   |+.+..
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            567788999999999999999999999888776432 5556666666555443   256788899988644   566677


Q ss_pred             HHHHHHhccCchhHHHHHHHHHhhcc
Q 044786          188 AKIVNNCREGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       188 ~li~~~~~~~~~~~a~~~~~~m~~~~  213 (340)
                      .+-..+...|++.+|...|+.|.+..
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            77888889999999999999998863

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.60  E-value=0.047  Score=46.00  Aligned_cols=247  Identities=12%  Similarity=0.012  Sum_probs=144.6

Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHH--HH--cCCC-CchhHHHHHHH
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLL--FK--LGSS-RNISLTGSLIN  160 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~--~~~~-~~~~~~~~l~~  160 (340)
                      -+++.|+....+.+|+..++.  |...+..-+.+|..|.++|.-.+++++|+++...=  +.  .|-+ -.......|.+
T Consensus        26 RLck~gdcraGv~ff~aA~qv--GTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQV--GTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHh--cchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            368889999999999999888  44444555667888888999999999999876431  11  1110 01122333444


Q ss_pred             HHHhhcCHHHHHHHHHH-c------ccC--ChhhHHHHHHHHhccCc--------------------hhHHHHHHHHHh-
Q 044786          161 FYGKFRCLEDADFVFSQ-L------KRH--NTVVWTAKIVNNCREGH--------------------FHQVFNDFKEMG-  210 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~-~------~~~--~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~-  210 (340)
                      .+--.|.+++|...-.+ +      -.+  ....+-.+...|...|+                    ++.|.++|.+=. 
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            45555666665443221 1      111  12233344444544332                    334445544321 


Q ss_pred             ---hcccCC-ChhhHHHHHHhcccCCchhchHHHHHHH----HHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          211 ---RERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHAN----IVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       211 ---~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~----~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                         +.|-.. -...|..+-..|--.|+++. +...++.    ..+.|-+. ....+..|-.++.-.|+++.|.+.++.-.
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~-ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl  262 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQ-AIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTL  262 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHH-HHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHH
Confidence               111111 12356666666777788865 4444432    22333332 34567778888888999999999887643


Q ss_pred             c------C--CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc-----CCccchhHHHHHHHHhhhcC
Q 044786          282 D------K--KNIASWNAMLVGYIRNGLYVEATKFLYLMKAS-----GIQIQESLINDLRIACSSIS  335 (340)
Q Consensus       282 ~------~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~~~~~~t~~~ll~a~~~~g  335 (340)
                      .      .  ....+.-+|.++|.-..++++|+.++.+-..-     ...-....+.+|=.++...|
T Consensus       263 ~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg  329 (639)
T KOG1130|consen  263 NLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALG  329 (639)
T ss_pred             HHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhh
Confidence            2      1  24456667888888889999999887764221     22334466777777776665

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.57  E-value=0.42  Score=41.09  Aligned_cols=119  Identities=13%  Similarity=0.068  Sum_probs=75.0

Q ss_pred             HHhccCc-hhHHHHHHHHHhhcccCC-ChhhHHHH----HHhcccC---CchhchHHHHHHHHHHhCCCc----cHHHHH
Q 044786          192 NNCREGH-FHQVFNDFKEMGRERIKK-NSYTFSSV----LKACGGV---DDDGNCGRQMHANIVKIGLES----DEYVQC  258 (340)
Q Consensus       192 ~~~~~~~-~~~a~~~~~~m~~~~~~p-~~~t~~~l----l~~~~~~---~~~~~~~~~~~~~~~~~~~~~----~~~~~~  258 (340)
                      -+.+.|. -++|+++++...+  +.| |...-+.+    =.+|.+.   ..+.+ ...+-..+...|++|    +...-|
T Consensus       388 ~lW~~g~~dekalnLLk~il~--ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~r-LlkLe~fi~e~gl~~i~i~e~eian  464 (549)
T PF07079_consen  388 HLWEIGQCDEKALNLLKLILQ--FTNYDIECENIVFLFVKQAYKQALSMHAIPR-LLKLEDFITEVGLTPITISEEEIAN  464 (549)
T ss_pred             HHHhcCCccHHHHHHHHHHHH--hccccHHHHHHHHHHHHHHHHHHHhhhhHHH-HHHHHHHHHhcCCCcccccHHHHHH
Confidence            3444454 7788888888776  233 22222222    2223221   12222 344555667788887    344445


Q ss_pred             HHHHH--HhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          259 GLVDM--YGKCRLLRDAERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       259 ~li~~--~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      .|-++  +...|++.++.-.-.-+.. .|++.+|..+.-++....++++|..++..+.
T Consensus       465 ~LaDAEyLysqgey~kc~~ys~WL~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  465 FLADAEYLYSQGEYHKCYLYSSWLTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            55443  3467888888766555544 5899999999999999999999999998874

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.52  E-value=0.013  Score=36.86  Aligned_cols=56  Identities=11%  Similarity=0.072  Sum_probs=30.8

Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .|.+.+++++|.++++.+...+      +.+...+......+.+.|++++|.+.++...+.+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~------p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD------PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC------cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            4455556666666666665553      3344455555555555556666655555555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.45  E-value=0.25  Score=37.12  Aligned_cols=65  Identities=6%  Similarity=-0.184  Sum_probs=31.0

Q ss_pred             cchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      .|+...-..|..+....|+..+|...|++...--+-.|....-.+.++....++...|...++++
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l  150 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDL  150 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            34444444445555555555555555555544444444444444444444444444444444443

>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=96.39  E-value=0.078  Score=46.46  Aligned_cols=159  Identities=9%  Similarity=-0.021  Sum_probs=89.8

Q ss_pred             HhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHH
Q 044786           19 ECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECIT   98 (340)
Q Consensus        19 ~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   98 (340)
                      ...-.++++.+.++.+.-.-...++  ..-.+.++.-+-+.|-.+.|+++-.+-        ..-.....+.|+.+.|.+
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~~  339 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDP--------DHRFELALQLGNLDIALE  339 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-H--------HHHHHHHHHCT-HHHHHH
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCCh--------HHHhHHHHhcCCHHHHHH
Confidence            3345677888776664211110122  445677777788888888888774332        223344556777777766


Q ss_pred             HHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786           99 LFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus        99 ~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      +.++           ..+...|..|...+.+.|+++-|++.|+...         -+..|+-.|.-.|+.++..++.+..
T Consensus       340 ~a~~-----------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  340 IAKE-----------LDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HCCC-----------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHh-----------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHH
Confidence            5433           3456677888888888888888877776543         2445666677777777777766665


Q ss_pred             ccCChhhHHHHHHHHhccCchhHHHHHHHHH
Q 044786          179 KRHNTVVWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       179 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                      ..++-  +|....++.-.|+.++..+++.+-
T Consensus       400 ~~~~~--~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  400 EERGD--INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHTT---HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHccC--HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            54432  455555666677777777776554

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.37  E-value=0.73  Score=41.57  Aligned_cols=22  Identities=18%  Similarity=0.238  Sum_probs=14.0

Q ss_pred             HHHHHcCchHHHHHHHHHHHHc
Q 044786          294 VGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       294 ~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .+|.+.|+-.+|..+++++...
T Consensus       825 kAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  825 KAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHhcchHHHHHHHHHhhhh
Confidence            3566667777777777766544

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

Probab=96.30  E-value=0.076  Score=42.92  Aligned_cols=101  Identities=7%  Similarity=-0.098  Sum_probs=75.9

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcc---cChhHHHHHHHHHHHhhcCCccccch
Q 044786           43 KPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDV---ADYQECITLFAEMMKRKKGHMLLVFP  116 (340)
Q Consensus        43 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~~~~~~~~~~  116 (340)
                      +-|...|-.|-..|.+.|+++.|..-|.+..   .+|+..+..+..++..+   ....++.++|+++...+      +-+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D------~~~  226 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD------PAN  226 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC------Ccc
Confidence            5577888888888888888888888887765   34555555555554333   34567888888888875      566


Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS  149 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  149 (340)
                      ..+...+...+...|++.+|...|+.|.+....
T Consensus       227 iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         227 IRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            777778888888888898888888888888644

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.19  E-value=0.4  Score=40.72  Aligned_cols=161  Identities=7%  Similarity=-0.041  Sum_probs=96.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcC-Cc------ccHHHHHHHHHc---ccChhHHHHHHHHHHHhhcCCcccc
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLR-DF------NSWAVMIVGYVD---VADYQECITLFAEMMKRKKGHMLLV  114 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~------~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~  114 (340)
                      +..+...++-+|-...+++...++.+.+... +.      .+--...-++.+   .|+.++|++++..+....  .   .
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~--~---~  214 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESD--E---N  214 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhcc--C---C
Confidence            3444446666688888888888888888743 11      111123334455   788888888888855442  1   5


Q ss_pred             chHHHHHHHHHHhhh---------ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH----HHHHHH---HHc
Q 044786          115 FPAWIIVCVLKACVC---------TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE----DADFVF---SQL  178 (340)
Q Consensus       115 ~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----~a~~~~---~~~  178 (340)
                      ++..+|..+.+.|-.         ...+++|...|.+.-+..  |+...--.+...+...|...    +..++-   ..+
T Consensus       215 ~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~l  292 (374)
T PF13281_consen  215 PDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSL  292 (374)
T ss_pred             CChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            677777777766532         235788888888777664  33322222222222233211    222222   111


Q ss_pred             c-c-------CChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          179 K-R-------HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       179 ~-~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      . +       .+--.+.+++.++.-.|+.++|....++|.+.
T Consensus       293 lg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  293 LGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            1 1       13344677888888899999999999999875

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.10  E-value=0.082  Score=42.33  Aligned_cols=90  Identities=13%  Similarity=0.248  Sum_probs=55.1

Q ss_pred             cCChhhHHHHHHHHhcc-----CchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCc---------------hhchHH
Q 044786          180 RHNTVVWTAKIVNNCRE-----GHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDD---------------DGNCGR  239 (340)
Q Consensus       180 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~---------------~~~~~~  239 (340)
                      ++|-.+|-..+..+...     +.++=....++.|.+-|+.-|..+|+.||..+-+..-               -.+.+.
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            44555555555555432     3445555556666666777777777777766543221               123466


Q ss_pred             HHHHHHHHhCCCccHHHHHHHHHHHhccCC
Q 044786          240 QMHANIVKIGLESDEYVQCGLVDMYGKCRL  269 (340)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  269 (340)
                      .+++.|...|+.||..+-..|+.++.+.+-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            777777777777777777777777766654

>PRK15331 chaperone protein SicA; Provisional

Probab=96.09  E-value=0.07  Score=39.24  Aligned_cols=85  Identities=11%  Similarity=0.036  Sum_probs=42.1

Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                      -..|++++|..+|.-+...+      ..+..-+..|..++-..+++++|...|......+. -|+..+--...+|...|+
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d------~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYD------FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhC------cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            34566666666666555543      23333344444444445556666655554444332 133333334455555555


Q ss_pred             HHHHHHHHHHcc
Q 044786          168 LEDADFVFSQLK  179 (340)
Q Consensus       168 ~~~a~~~~~~~~  179 (340)
                      .+.|...|....
T Consensus       121 ~~~A~~~f~~a~  132 (165)
T PRK15331        121 AAKARQCFELVN  132 (165)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.02  E-value=0.32  Score=43.32  Aligned_cols=173  Identities=14%  Similarity=0.079  Sum_probs=118.6

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-CCcc---------cHHHHHHHHHc----ccC
Q 044786           27 AGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-RDFN---------SWAVMIVGYVD----VAD   92 (340)
Q Consensus        27 ~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~---------~~~~li~~~~~----~g~   92 (340)
                      .-..-+|.-+.+.  +||.   +..++...+-.|+-+.+++++..-.+ ++..         .|+..+..++.    ..+
T Consensus       174 ~~G~G~f~L~lSl--LPp~---~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~  248 (468)
T PF10300_consen  174 YFGFGLFNLVLSL--LPPK---VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVP  248 (468)
T ss_pred             HHHHHHHHHHHHh--CCHH---HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCC
Confidence            3345677777776  5543   44677788888999999998887653 2322         36666655544    456


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHH-HHhhhccchhhHHHHHHHHHHcC---CCCchhHHHHHHHHHHhhcCH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVL-KACVCTMNMELGKQVHGLLFKLG---SSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      .+.|.++++.+.+.       -|+...|...- +.+...|++++|.+.++......   .+.....+--+.-.+.-..+|
T Consensus       249 ~~~a~~lL~~~~~~-------yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w  321 (468)
T PF10300_consen  249 LEEAEELLEEMLKR-------YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDW  321 (468)
T ss_pred             HHHHHHHHHHHHHh-------CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchH
Confidence            78899999999988       67777666554 56667899999999999765321   122334455566678889999


Q ss_pred             HHHHHHHHHcccCCh---hhHHHHH-HHHhccCch-------hHHHHHHHHHhh
Q 044786          169 EDADFVFSQLKRHNT---VVWTAKI-VNNCREGHF-------HQVFNDFKEMGR  211 (340)
Q Consensus       169 ~~a~~~~~~~~~~~~---~~~~~li-~~~~~~~~~-------~~a~~~~~~m~~  211 (340)
                      ++|.+.|..+.+.+.   ..|.-+. .++...|+.       ++|.++|++...
T Consensus       322 ~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  322 EEAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            999999999986532   2333322 233346777       888888888754

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.96  E-value=0.88  Score=38.76  Aligned_cols=160  Identities=11%  Similarity=0.036  Sum_probs=88.8

Q ss_pred             HHHHHHHHhhcCHHHHHHHHHHcccC-------ChhhHHHHHHHHhc---cCchhHHHHHHHHHhhcccCCChhhHHHHH
Q 044786          156 GSLINFYGKFRCLEDADFVFSQLKRH-------NTVVWTAKIVNNCR---EGHFHQVFNDFKEMGRERIKKNSYTFSSVL  225 (340)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll  225 (340)
                      -.++-+|....+++...++.+.+...       ....--....++-+   .|+.++|++++..+....-.++..||..+-
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            34555688888888888888888754       11122233445556   788899999988866665667777887777


Q ss_pred             Hhccc----C--CchhchHHHHHHHHHHhCCCccHHH---HHHHHHHHhccC-CHHHHHHHH---HHhh-cC------Cc
Q 044786          226 KACGG----V--DDDGNCGRQMHANIVKIGLESDEYV---QCGLVDMYGKCR-LLRDAERVF---ELIV-DK------KN  285 (340)
Q Consensus       226 ~~~~~----~--~~~~~~~~~~~~~~~~~~~~~~~~~---~~~li~~~~~~~-~~~~A~~~~---~~~~-~~------~~  285 (340)
                      ..|-.    .  .+.+..-..+...-+...+.|+.+.   +.+|+....... .-.+..++-   ..+. .+      .+
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~d  304 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQD  304 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccccc
Confidence            66521    1  1111111112222222233343221   122332222211 112223332   1111 11      24


Q ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          286 IASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       286 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ---+.+++.+..-.|++++|.+.+++|...
T Consensus       305 YWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  305 YWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            445567888999999999999999999866

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.92  E-value=0.45  Score=42.37  Aligned_cols=145  Identities=12%  Similarity=-0.006  Sum_probs=103.3

Q ss_pred             ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch----HHHHHHHHHHhhhc----cchhhHHHHHHHHHHcCCC
Q 044786           78 NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP----AWIIVCVLKACVCT----MNMELGKQVHGLLFKLGSS  149 (340)
Q Consensus        78 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~----~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~  149 (340)
                      .....++....-.|+-+.+++.+.+..+.+ ++.  .|-    -..|+.++..++..    .+.+.+.++++.+.+.-  
T Consensus       189 p~~~kll~~vGF~gdR~~GL~~L~~~~~~~-~i~--~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y--  263 (468)
T PF10300_consen  189 PKVLKLLSFVGFSGDRELGLRLLWEASKSE-NIR--SPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY--  263 (468)
T ss_pred             HHHHHHHhhcCcCCcHHHHHHHHHHHhccC-Ccc--hHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC--
Confidence            456778888888899999999999877643 442  222    24777777666554    47899999999998874  


Q ss_pred             CchhHHHH-HHHHHHhhcCHHHHHHHHHHcccC-------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhH
Q 044786          150 RNISLTGS-LINFYGKFRCLEDADFVFSQLKRH-------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTF  221 (340)
Q Consensus       150 ~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  221 (340)
                      |+...|.. -.+.+...|++++|.+.|+.....       ....+--+.-.+....+|++|.+.|.++.+.. ..+..+|
T Consensus       264 P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y  342 (468)
T PF10300_consen  264 PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFY  342 (468)
T ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHH
Confidence            55555443 346677889999999999975532       33345556677888999999999999998853 3455555


Q ss_pred             HHHHHhc
Q 044786          222 SSVLKAC  228 (340)
Q Consensus       222 ~~ll~~~  228 (340)
                      .-+..+|
T Consensus       343 ~Y~~a~c  349 (468)
T PF10300_consen  343 AYLAAAC  349 (468)
T ss_pred             HHHHHHH
Confidence            5444443

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.91  E-value=0.12  Score=41.82  Aligned_cols=76  Identities=14%  Similarity=0.148  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhhc-C-CcHHHHHHHHHHHHHcCchHHHHHHHHHHHH-----cCCccchhHHHHH
Q 044786          255 YVQCGLVDMYGKCRLLRDAERVFELIVD-K-KNIASWNAMLVGYIRNGLYVEATKFLYLMKA-----SGIQIQESLINDL  327 (340)
Q Consensus       255 ~~~~~li~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~t~~~l  327 (340)
                      .++..+++.+..+|+.+.+...++++.. . -+...|..++.+|.+.|+...|+..|+++..     .|+.|.+.+....
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4567889999999999999999999986 2 4888999999999999999999999998765     5999999888777


Q ss_pred             HHH
Q 044786          328 RIA  330 (340)
Q Consensus       328 l~a  330 (340)
                      ..+
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            666

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.77  E-value=0.14  Score=44.10  Aligned_cols=65  Identities=9%  Similarity=-0.104  Sum_probs=49.4

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcCc
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL----LFLNRLLLMHVSCGQLDTARQLFDEMPL   74 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~   74 (340)
                      |.++..++.+-.+|.+.|++++|+..|+...+.   .|+.    .+|..+..+|...|++++|++.+++..+
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344567778888888888888888888887755   4553    3578888888888888888888877664

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.74  E-value=0.26  Score=39.60  Aligned_cols=115  Identities=9%  Similarity=0.011  Sum_probs=75.0

Q ss_pred             hHHHHHHHHHHhhh-----ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHH
Q 044786          116 PAWIIVCVLKACVC-----TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKI  190 (340)
Q Consensus       116 ~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li  190 (340)
                      |..+|-..+..+..     .+.++-....++.|.+.|+..|..+|+.|++.+-+-.-.                .-|.+-
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P~nvfQ  129 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------PQNVFQ  129 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------cHHHHH
Confidence            44444444444432     345666666778899999999999999999877553211                112222


Q ss_pred             HHHhc-cCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHH
Q 044786          191 VNNCR-EGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIV  246 (340)
Q Consensus       191 ~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  246 (340)
                      ..+.. -.+-+-+++++++|...|+.||..+-..++.++.+.+..-.-...+.-+|-
T Consensus       130 ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  130 KVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            22222 123345789999999999999999999999999888776433444444443

>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=95.73  E-value=0.42  Score=42.05  Aligned_cols=161  Identities=12%  Similarity=-0.011  Sum_probs=90.9

Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      ....-.++++++.++...-.    -++  ..+..-.+.+++-+.+.|..+.|+++..         |+   ..-.+...+
T Consensus       269 k~av~~~d~~~v~~~i~~~~----ll~--~i~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~---~~rFeLAl~  330 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASN----LLP--NIPKDQGQSIARFLEKKGYPELALQFVT---------DP---DHRFELALQ  330 (443)
T ss_dssp             HHHHHTT-HHH-----HHHH----TGG--G--HHHHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHH
T ss_pred             HHHHHcCChhhhhhhhhhhh----hcc--cCChhHHHHHHHHHHHCCCHHHHHhhcC---------Ch---HHHhHHHHh
Confidence            34455677777666654111    110  1224456777777778888888877643         22   123455667


Q ss_pred             hcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHH
Q 044786          165 FRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHAN  244 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~  244 (340)
                      .|+++.|.++.++..  +...|..|.....+.|+++-|.+.|.+...         |..++-.|...|+.+. ...+...
T Consensus       331 lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~-L~kl~~~  398 (443)
T PF04053_consen  331 LGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREK-LSKLAKI  398 (443)
T ss_dssp             CT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHH-HHHHHHH
T ss_pred             cCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHH-HHHHHHH
Confidence            888888888766655  555788888888888888888888877653         3455555566666533 5555555


Q ss_pred             HHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          245 IVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       245 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      ....|      -+|.-..++.-.|++++..+++.+-.
T Consensus       399 a~~~~------~~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  399 AEERG------DINIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             HHHTT-------HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             HHHcc------CHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            44443      23445555556677777777766553

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.

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

Probab=95.70  E-value=0.74  Score=35.86  Aligned_cols=178  Identities=13%  Similarity=0.156  Sum_probs=85.3

Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      ...+...|++.+|.+.|+.+.....+.   +.-....-.+..++.+.|+++.|...++...+.-+.....-+...+.+.+
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s---~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~   88 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNS---PYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLS   88 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTS---TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCC---hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHH
Confidence            344556777777777777777663221   23334555666777777777777777776665533322222222222221


Q ss_pred             hhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHH--
Q 044786          164 KFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQM--  241 (340)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~--  241 (340)
                      .........                  ......+...+|...|+++.+.  -|+.             ....+ +...  
T Consensus        89 ~~~~~~~~~------------------~~~~D~~~~~~A~~~~~~li~~--yP~S-------------~y~~~-A~~~l~  134 (203)
T PF13525_consen   89 YYKQIPGIL------------------RSDRDQTSTRKAIEEFEELIKR--YPNS-------------EYAEE-AKKRLA  134 (203)
T ss_dssp             HHHHHHHHH-------------------TT---HHHHHHHHHHHHHHHH---TTS-------------TTHHH-HHHHHH
T ss_pred             HHHhCccch------------------hcccChHHHHHHHHHHHHHHHH--CcCc-------------hHHHH-HHHHHH
Confidence            111111000                  0011123344555555555543  2332             11112 2111  


Q ss_pred             --HHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-CcH----HHHHHHHHHHHHcCchHHHH
Q 044786          242 --HANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-KNI----ASWNAMLVGYIRNGLYVEAT  306 (340)
Q Consensus       242 --~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~----~~~~~li~~~~~~~~~~~a~  306 (340)
                        .+.+.+..        -.+...|.+.|.+..|..-++.+... |+.    ...-.++.+|.+.|..+.|.
T Consensus       135 ~l~~~la~~e--------~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  135 ELRNRLAEHE--------LYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHH--------HHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHH--------HHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence              11111111        13566788888888888888877763 322    34567778888888777443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.68  E-value=0.53  Score=34.07  Aligned_cols=126  Identities=11%  Similarity=0.134  Sum_probs=66.2

Q ss_pred             HHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHh
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYG  265 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  265 (340)
                      ...+|..+...+.+.....+++.+...+ ..+....+.++..|++.... + .   .+.+..   ..+......++..|.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~~-~-l---l~~l~~---~~~~yd~~~~~~~c~   80 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDPQ-K-E---IERLDN---KSNHYDIEKVGKLCE   80 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCHH-H-H---HHHHHh---ccccCCHHHHHHHHH
Confidence            3445555655666666666666666654 24444556666666654332 1 1   122221   122333344666666


Q ss_pred             ccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHc-CchHHHHHHHHHHHHcCCccchhHHHHHHHHhh
Q 044786          266 KCRLLRDAERVFELIVDKKNIASWNAMLVGYIRN-GLYVEATKFLYLMKASGIQIQESLINDLRIACS  332 (340)
Q Consensus       266 ~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~  332 (340)
                      +.+-++++.-++.++..      |...+..+... ++++.|.+.+.+-      -++..|..++..|.
T Consensus        81 ~~~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       81 KAKLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             HcCcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            66666666666666631      22233333333 6677777666641      25556666666554

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.49  E-value=0.56  Score=33.10  Aligned_cols=117  Identities=10%  Similarity=0.059  Sum_probs=51.9

Q ss_pred             hhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---------------------Cccc
Q 044786           21 TFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---------------------DFNS   79 (340)
Q Consensus        21 ~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---------------------~~~~   79 (340)
                      .-.|..++..++....... .   +..-+|.+|.-....-+-+-..+.++.+-+-                     +..-
T Consensus        13 ildG~V~qGveii~k~v~S-s---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~   88 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS-S---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEY   88 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH-S----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HH
T ss_pred             HHhchHHHHHHHHHHHcCc-C---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHH
Confidence            3457778888888777766 1   4445555554444444444445554444321                     1122


Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .+..+.....+|+-+.-.+++..+.+.+      .++......+..+|.+.|+..++.+++.+.-+.|
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn~------~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKNE------EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH-----------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhcc------CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            3334444444444444444444444322      3444444444445555555555544444444444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.46  E-value=0.19  Score=37.07  Aligned_cols=89  Identities=7%  Similarity=-0.107  Sum_probs=70.3

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc---ccCChhhHHHHHHHHhccCc
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL---KRHNTVVWTAKIVNNCREGH  198 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~  198 (340)
                      ...--+...|++++|..+|+-+.-.++. +..-+..|..++-..+++++|...|...   ...|..++-....+|...|+
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCC
Confidence            3444556789999999999988877654 5556677888888889999999988764   24466677777889999999


Q ss_pred             hhHHHHHHHHHhh
Q 044786          199 FHQVFNDFKEMGR  211 (340)
Q Consensus       199 ~~~a~~~~~~m~~  211 (340)
                      .+.|...|.....
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999888876

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.42  E-value=0.67  Score=33.53  Aligned_cols=87  Identities=9%  Similarity=0.027  Sum_probs=64.2

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHccc
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVA   91 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g   91 (340)
                      ....++..+...+.......+++.+... + ..+...++.++..|++.+ ..+..+.++.  ..+......+++.|.+.+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~-~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKL-N-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHcc-C-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcC
Confidence            3457888888888899999999999887 6 367888999999998764 3444455552  234445566778888888


Q ss_pred             ChhHHHHHHHHH
Q 044786           92 DYQECITLFAEM  103 (340)
Q Consensus        92 ~~~~a~~~~~~m  103 (340)
                      .++++.-++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            888888887776

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.40  E-value=0.19  Score=43.38  Aligned_cols=62  Identities=2%  Similarity=-0.116  Sum_probs=45.9

Q ss_pred             ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchH----HHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           78 NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPA----WIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        78 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      ..|+.+..+|...|++++|+..|++.++.       .|+.    .+|..+..+|...|+.++|.+.++...+.
T Consensus        76 ~a~~NLG~AL~~lGryeEAIa~f~rALeL-------~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         76 EDAVNLGLSLFSKGRVKDALAQFETALEL-------NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh-------CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35777777888888888888888887776       3442    35777888888888888888887777664

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.29  E-value=0.26  Score=39.38  Aligned_cols=97  Identities=12%  Similarity=0.091  Sum_probs=62.4

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-C-chhHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-R-NISLTGS  157 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~  157 (340)
                      |+.-+..+ +.|++..|...|....+...+-   ......+..|..++...|++++|..+|..+.+.-.+ | -+..+-.
T Consensus       145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s---~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNS---TYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCC---cccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            66666544 5667888888888888773211   334446677778888888888888777776654322 2 2245555


Q ss_pred             HHHHHHhhcCHHHHHHHHHHccc
Q 044786          158 LINFYGKFRCLEDADFVFSQLKR  180 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~  180 (340)
                      |..+..+.|+.++|...|+++.+
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHH
Confidence            66666666777777766666654

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.23  E-value=0.65  Score=38.41  Aligned_cols=148  Identities=10%  Similarity=-0.019  Sum_probs=98.8

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHH----HHHHcccChh
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMI----VGYVDVADYQ   94 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li----~~~~~~g~~~   94 (340)
                      ..|.+.+|-..++++.+.  ++.|...++.-=.+|.-.|+.+.-...++++..   +|...|..+-    -++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d--~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            346677777778888775  677777777777888888888888888888773   3554443322    2345678888


Q ss_pred             HHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhhcCHHHH
Q 044786           95 ECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN---ISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  171 (340)
                      +|++.-++..+.+      +.|...-.+....+-..|++.++.++..+-...=-+..   ..-|=-..-.+...+.++.|
T Consensus       193 dAEk~A~ralqiN------~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~a  266 (491)
T KOG2610|consen  193 DAEKQADRALQIN------RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKA  266 (491)
T ss_pred             hHHHHHHhhccCC------CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHH
Confidence            8888888887775      67888888888888888888888877654322100000   00111122345566888888


Q ss_pred             HHHHHH
Q 044786          172 DFVFSQ  177 (340)
Q Consensus       172 ~~~~~~  177 (340)
                      +++|+.
T Consensus       267 leIyD~  272 (491)
T KOG2610|consen  267 LEIYDR  272 (491)
T ss_pred             HHHHHH
Confidence            888875

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.20  E-value=0.47  Score=37.99  Aligned_cols=64  Identities=11%  Similarity=-0.001  Sum_probs=30.0

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      +-.|..++...|++++|...|..+.+.....   +--...+--|..+..+.|+.++|..+|+++.+.
T Consensus       181 ~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s---~KApdallKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         181 YYWLGESLYAQGDYEDAAYIFARVVKDYPKS---PKAPDALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHhCCCC---CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4444555555555555555555554442111   112234444555555555555555555555444

>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=95.17  E-value=1.5  Score=36.11  Aligned_cols=100  Identities=11%  Similarity=-0.062  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhhhccchh---hHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHH
Q 044786          118 WIIVCVLKACVCTMNME---LGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIV  191 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~  191 (340)
                      .++..++.++...+..+   +|..+++.+.+.... .+.++-.-++.+.+.++.+.+.+++.+|...   ....+...+.
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~  163 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILH  163 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHH
Confidence            36666777777766544   444455555443322 2444545566666677888888888777643   2233444444


Q ss_pred             HHhc--cCchhHHHHHHHHHhhcccCCCh
Q 044786          192 NNCR--EGHFHQVFNDFKEMGRERIKKNS  218 (340)
Q Consensus       192 ~~~~--~~~~~~a~~~~~~m~~~~~~p~~  218 (340)
                      .+..  ......|...+..+....+.|..
T Consensus       164 ~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  164 HIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            3321  22234555555555544444443

It is also involved in sporulation [].

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.10  E-value=2  Score=37.19  Aligned_cols=142  Identities=11%  Similarity=0.106  Sum_probs=100.1

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHH-HH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLT-GS  157 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  157 (340)
                      +|...+....+..-.+.|..+|-+..+.  |+  +.++..++++++..++. |+...|..+|+.-...-  ||...| +.
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~--~~--~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f--~d~~~y~~k  471 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKE--GI--VGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKF--PDSTLYKEK  471 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhcc--CC--CCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhC--CCchHHHHH
Confidence            5777788888888888888899888887  43  36778888888877654 67778888887544432  233333 45


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcccC---C--hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcc
Q 044786          158 LINFYGKFRCLEDADFVFSQLKRH---N--TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACG  229 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~  229 (340)
                      .+..+...++-+.|..+|+...++   +  ...|..+|.--..-|+...+..+=++|..  +.|...+......-|.
T Consensus       472 yl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry~  546 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHHh
Confidence            667777888888888888865543   2  45688888887888888888888777766  3565555555555554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.95  E-value=0.39  Score=40.65  Aligned_cols=105  Identities=15%  Similarity=0.174  Sum_probs=65.3

Q ss_pred             HHHHHhcCChhHHHHHHhhcCc----C--------------CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCcccc
Q 044786           53 LLMHVSCGQLDTARQLFDEMPL----R--------------DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLV  114 (340)
Q Consensus        53 i~~~~~~~~~~~a~~~~~~~~~----~--------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  114 (340)
                      -+.|.+.|++..|...|++...    .              -..++..+.-++.+.+++..|++.-++.++.+      +
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~------~  288 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD------P  288 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC------C
Confidence            3456777888888777766431    0              11245666667777777777777777777774      5


Q ss_pred             chHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786          115 FPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus       115 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      ++.....-=..++...|+++.|...|+.+++..+. |-..-+.++..--+
T Consensus       289 ~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  289 NNVKALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQK  337 (397)
T ss_pred             CchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHH
Confidence            66666666667777777777777777777666433 33333334433333

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.84  E-value=2.2  Score=36.29  Aligned_cols=239  Identities=8%  Similarity=-0.022  Sum_probs=120.6

Q ss_pred             CChhHHHHHHhhcC---cCCcccHHHHHHHH--HcccChhHHHHHHHHHHHhhcCCccccchHH--HHHHHHHHhhhccc
Q 044786           60 GQLDTARQLFDEMP---LRDFNSWAVMIVGY--VDVADYQECITLFAEMMKRKKGHMLLVFPAW--IIVCVLKACVCTMN  132 (340)
Q Consensus        60 ~~~~~a~~~~~~~~---~~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~  132 (340)
                      |+-..|.++-.+-.   ..|....-.++.+-  .-.|+++.|.+-|+.|...        |...  -+..|.-..-+.|+
T Consensus        98 Gda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d--------PEtRllGLRgLyleAqr~Ga  169 (531)
T COG3898          98 GDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD--------PETRLLGLRGLYLEAQRLGA  169 (531)
T ss_pred             CchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC--------hHHHHHhHHHHHHHHHhccc
Confidence            55555555544332   33444444444332  3347777777777777643        2222  23334444445666


Q ss_pred             hhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc-----C--------------------------
Q 044786          133 MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR-----H--------------------------  181 (340)
Q Consensus       133 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~--------------------------  181 (340)
                      .+.|.++-+..-..-.+ -.......++..|..|+|+.|+++++.-..     +                          
T Consensus       170 reaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~A  248 (531)
T COG3898         170 REAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASA  248 (531)
T ss_pred             HHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHH
Confidence            66666665555443322 234555666677777777777776654321     1                          


Q ss_pred             ------------Chhh-HHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHh
Q 044786          182 ------------NTVV-WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       182 ------------~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                                  |.+. --.--.++.+.|+..++-.+++.+.+....|+..    .+-.+.+.|+..  ...+.+.-.-.
T Consensus       249 r~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia----~lY~~ar~gdta--~dRlkRa~~L~  322 (531)
T COG3898         249 RDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA----LLYVRARSGDTA--LDRLKRAKKLE  322 (531)
T ss_pred             HHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH----HHHHHhcCCCcH--HHHHHHHHHHH
Confidence                        1111 1112356666777777777777776654444431    222334444431  22222222222


Q ss_pred             CCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHH-HHcCchHHHHHHHHHHH
Q 044786          249 GLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGY-IRNGLYVEATKFLYLMK  313 (340)
Q Consensus       249 ~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~-~~~~~~~~a~~~~~~m~  313 (340)
                      .++| +..+-..+.++-...|++..|..--+.... .|....|..|...- ...|+-.++..++-+-.
T Consensus       323 slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav  390 (531)
T COG3898         323 SLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRESAYLLLADIEEAETGDQGKVRQWLAQAV  390 (531)
T ss_pred             hcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhhHHHHHHHHHhhccCchHHHHHHHHHHh
Confidence            3444 344455556666666666665554444332 35555555555433 23466666666655543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.83  E-value=3.3  Score=38.28  Aligned_cols=119  Identities=11%  Similarity=0.052  Sum_probs=90.1

Q ss_pred             CCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHH
Q 044786          147 GSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLK  226 (340)
Q Consensus       147 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  226 (340)
                      |..-...+.+--+.-+..-|+..+|.++-.+..-||-..|-.-+.+++..++|++-+++-+.+..      +.-|.-+..
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe  752 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVE  752 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHH
Confidence            33334445556667778889999999999999999999999999999999999988777655542      467788899


Q ss_pred             hcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          227 ACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      +|.+.|+.++ |..+.....     +..    -.+.+|.+.|++.+|.++--+-+
T Consensus       753 ~c~~~~n~~E-A~KYiprv~-----~l~----ekv~ay~~~~~~~eAad~A~~~r  797 (829)
T KOG2280|consen  753 ACLKQGNKDE-AKKYIPRVG-----GLQ----EKVKAYLRVGDVKEAADLAAEHR  797 (829)
T ss_pred             HHHhcccHHH-HhhhhhccC-----ChH----HHHHHHHHhccHHHHHHHHHHhc
Confidence            9999999988 555544322     111    57788999999999887755443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.82  E-value=1.9  Score=36.89  Aligned_cols=153  Identities=7%  Similarity=-0.088  Sum_probs=86.6

Q ss_pred             HHHHhhcCHHHHHHHHHHcccCChh-hHHHHHHHH--hccCchhHHHHHHHHHhhcccCCChhhHHHHHHh---------
Q 044786          160 NFYGKFRCLEDADFVFSQLKRHNTV-VWTAKIVNN--CREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKA---------  227 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~---------  227 (340)
                      .++.-.|++++|.++--.+.+-|.. .+...+++.  -..++.+.|...|.+-...  .|+...-..+-..         
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHh
Confidence            3455567777777766555544332 233334333  3466777777777776653  3554433222211         


Q ss_pred             ----cccCCchhchHHHHHHHHHH---hCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHH--HHHH
Q 044786          228 ----CGGVDDDGNCGRQMHANIVK---IGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLV--GYIR  298 (340)
Q Consensus       228 ----~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~--~~~~  298 (340)
                          ..+.|.+.. +...+...+.   .+..|+...|.....+..+.|+.++|..-.++...-.+..++..+.+  ++..
T Consensus       255 ~gN~~fk~G~y~~-A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~  333 (486)
T KOG0550|consen  255 RGNDAFKNGNYRK-AYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLA  333 (486)
T ss_pred             hhhhHhhccchhH-HHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHH
Confidence                245566644 4444444332   23455666777777777788888888887777764333444444433  3445


Q ss_pred             cCchHHHHHHHHHHHHc
Q 044786          299 NGLYVEATKFLYLMKAS  315 (340)
Q Consensus       299 ~~~~~~a~~~~~~m~~~  315 (340)
                      .++|++|.+-|+.....
T Consensus       334 le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            67777777777765433

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.68  E-value=1.1  Score=32.29  Aligned_cols=79  Identities=14%  Similarity=0.080  Sum_probs=54.6

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCcCC----cccHHHHHHH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPLRD----FNSWAVMIVG   86 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~li~~   86 (340)
                      .|..-. ...+.|+++.|.+.|+.+..++-..| .....-.|+.+|.+.+++++|...++++.+-+    -..|...+.+
T Consensus        13 ly~~a~-~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~g   91 (142)
T PF13512_consen   13 LYQEAQ-EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRG   91 (142)
T ss_pred             HHHHHH-HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHH
Confidence            344433 34578999999999999998743322 34556678889999999999999999887321    2346666666


Q ss_pred             HHccc
Q 044786           87 YVDVA   91 (340)
Q Consensus        87 ~~~~g   91 (340)
                      ++...
T Consensus        92 L~~~~   96 (142)
T PF13512_consen   92 LSYYE   96 (142)
T ss_pred             HHHHH
Confidence            55443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.61  E-value=1.9  Score=34.62  Aligned_cols=127  Identities=13%  Similarity=0.131  Sum_probs=56.4

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC-CCCchh----HHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG-SSRNIS----LTGS  157 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~----~~~~  157 (340)
                      +|..+.+.+++++....|.+++.--...-.-..+..+.+.++..-..+.+.+....+|+.-.+.- -..+..    |-+.
T Consensus        71 miKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtK  150 (440)
T KOG1464|consen   71 MIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTK  150 (440)
T ss_pred             HHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccch
Confidence            44555555555555555555543200000002233344555555444555544444443322110 000111    2234


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcccC---------------ChhhHHHHHHHHhccCchhHHHHHHHHH
Q 044786          158 LINFYGKFRCLEDADFVFSQLKRH---------------NTVVWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                      |...|...+++.+..++++++.+.               -...|..=|..|....+-.+...++++.
T Consensus       151 Lgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqa  217 (440)
T KOG1464|consen  151 LGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQA  217 (440)
T ss_pred             HhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHH
Confidence            555566666666666666655421               1234555555666555555555555544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=94.59  E-value=3.1  Score=37.86  Aligned_cols=188  Identities=10%  Similarity=0.027  Sum_probs=110.8

Q ss_pred             CCCCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--------
Q 044786            2 DNLCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--------   73 (340)
Q Consensus         2 ~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--------   73 (340)
                      +++|-.|+...   +...|+-.|.+.+|-++|.+-    |..      |..+.+|...+.+|.|.+++..-.        
T Consensus       627 k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~----G~e------nRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~  693 (1081)
T KOG1538|consen  627 KKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS----GHE------NRALEMYTDLRMFDYAQEFLGSGDPKEKKMLI  693 (1081)
T ss_pred             HhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc----Cch------hhHHHHHHHHHHHHHHHHHhhcCChHHHHHHH
Confidence            45566666543   445567778888888887543    332      233455555555555555544322        


Q ss_pred             -c-----CCcccHHHHHHHHHcccChhHHHHHHH------HHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHH
Q 044786           74 -L-----RDFNSWAVMIVGYVDVADYQECITLFA------EMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHG  141 (340)
Q Consensus        74 -~-----~~~~~~~~li~~~~~~g~~~~a~~~~~------~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  141 (340)
                       +     +|+.-=.+....+..+|+.++|..+.-      .+.+.+-.+  -..+..+...+..-+-+...+..|-++|.
T Consensus       694 RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkl--d~~ere~l~~~a~ylk~l~~~gLAaeIF~  771 (1081)
T KOG1538|consen  694 RKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKL--DKAEREPLLLCATYLKKLDSPGLAAEIFL  771 (1081)
T ss_pred             HHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhc--chhhhhHHHHHHHHHhhccccchHHHHHH
Confidence             1     122222234455666777777766532      122221111  13344455555555555666777777777


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC--Chh-----------hHHHHHHHHhccCchhHHHHHHHH
Q 044786          142 LLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH--NTV-----------VWTAKIVNNCREGHFHQVFNDFKE  208 (340)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-----------~~~~li~~~~~~~~~~~a~~~~~~  208 (340)
                      .|-+.         .++++.....++|++|..+-+..++-  ++.           -|..--++|.+.|+..+|..++++
T Consensus       772 k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQ  842 (1081)
T KOG1538|consen  772 KMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQ  842 (1081)
T ss_pred             HhccH---------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHH
Confidence            66433         35677888889999999998887642  221           234445788889999999999998


Q ss_pred             Hhhcc
Q 044786          209 MGRER  213 (340)
Q Consensus       209 m~~~~  213 (340)
                      +....
T Consensus       843 Ltnna  847 (1081)
T KOG1538|consen  843 LTNNA  847 (1081)
T ss_pred             hhhhh
Confidence            86543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.58  E-value=4.2  Score=39.72  Aligned_cols=30  Identities=23%  Similarity=0.273  Sum_probs=19.6

Q ss_pred             CCCHHHHHHHHHHHHhcC--ChhHHHHHHhhcC
Q 044786           43 KPTLLFLNRLLLMHVSCG--QLDTARQLFDEMP   73 (340)
Q Consensus        43 ~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~   73 (340)
                      .|+ .-.-.+|..|.+.+  .++.|+....+..
T Consensus       788 ~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~  819 (1265)
T KOG1920|consen  788 APD-KFNLFILTSYVKSNPPEIEEALQKIKELQ  819 (1265)
T ss_pred             Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            445 44456777888776  6677776666555

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.53  E-value=1.1  Score=31.64  Aligned_cols=63  Identities=14%  Similarity=0.096  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCc
Q 044786          256 VQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       256 ~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  318 (340)
                      .+..-++.+.+.|+-+.-.++..++..  ++++...-.+..+|.+.|+..++-+++++..++|++
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            345566677788899999999998863  577888888999999999999999999999999975

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.43  E-value=0.53  Score=37.08  Aligned_cols=165  Identities=10%  Similarity=0.016  Sum_probs=88.1

Q ss_pred             hhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHH
Q 044786           26 SAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMK  105 (340)
Q Consensus        26 ~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  105 (340)
                      ++.|.-+...+...   .--...|+.-..+|..+|..+.|-..+++.-+            ....-++++|+++|.+...
T Consensus        74 yEqaamLake~~kl---sEvvdl~eKAs~lY~E~GspdtAAmaleKAak------------~lenv~Pd~AlqlYqrala  138 (308)
T KOG1585|consen   74 YEQAAMLAKELSKL---SEVVDLYEKASELYVECGSPDTAAMALEKAAK------------ALENVKPDDALQLYQRALA  138 (308)
T ss_pred             HHHHHHHHHHHHHh---HHHHHHHHHHHHHHHHhCCcchHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHH
Confidence            34444444555433   22345677777888888888877776665431            1123344455555544332


Q ss_pred             hhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc----CCCCch-hHHHHHHHHHHhhcCHHHHHHHHHHcc-
Q 044786          106 RKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL----GSSRNI-SLTGSLINFYGKFRCLEDADFVFSQLK-  179 (340)
Q Consensus       106 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~-  179 (340)
                      .-..-+...--...+..+-+.+.+...+++|-..+..-...    .-.++. ..|...|-.|....++..|+..++.-. 
T Consensus       139 vve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~q  218 (308)
T KOG1585|consen  139 VVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQ  218 (308)
T ss_pred             HHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhc
Confidence            10000001344444555555666666666555444332211    111222 235566666777788888888888732 


Q ss_pred             ------cCChhhHHHHHHHHhccCchhHHHHHH
Q 044786          180 ------RHNTVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       180 ------~~~~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                            ..+..+...|+.+|- .|+.+++.++.
T Consensus       219 ip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  219 IPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             CccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence                  125667778887774 56666655443

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

Probab=94.42  E-value=0.13  Score=27.14  Aligned_cols=26  Identities=19%  Similarity=0.183  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          288 SWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       288 ~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      +|+.|...|.+.|++++|+++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46778888888888888888888854

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.40  E-value=1  Score=33.11  Aligned_cols=49  Identities=20%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             hcCChhHHHHHHhhcC--cCCcccH-HHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           58 SCGQLDTARQLFDEMP--LRDFNSW-AVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        58 ~~~~~~~a~~~~~~~~--~~~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +.++.+++..+++.+.  .|..... ..-...+...|+|.+|+++|+++.+.
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3455555555555444  2322211 11222344555666666666665443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.37  E-value=2.9  Score=35.65  Aligned_cols=63  Identities=10%  Similarity=-0.103  Sum_probs=47.5

Q ss_pred             ccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCC------cHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          252 SDEYVQCGLVDMYGKCRLLRDAERVFELIVDKK------NIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       252 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      ....+|..+.+.+-+.|+++.|...+..+....      .+...-.-...+-..|+..+|+..+++...
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455677888888889999999999888887522      344444556667788888999998888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.36  E-value=0.17  Score=28.10  Aligned_cols=28  Identities=14%  Similarity=0.331  Sum_probs=20.5

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +|..+...|...|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556677777777777777777777776

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.23  E-value=2.5  Score=34.45  Aligned_cols=19  Identities=16%  Similarity=0.499  Sum_probs=8.9

Q ss_pred             HcccChhHHHHHHHHHHHh
Q 044786           88 VDVADYQECITLFAEMMKR  106 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~  106 (340)
                      ...|++.+|..+|+.....
T Consensus       145 ~~~e~~~~a~~~~~~al~~  163 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQA  163 (304)
T ss_pred             hhccchhhHHHHHHHHHHh
Confidence            3444444444444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.22  E-value=2.8  Score=34.84  Aligned_cols=127  Identities=13%  Similarity=0.119  Sum_probs=81.1

Q ss_pred             chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh--hc----CHHHHHHHHHHcccC-------ChhhHHHHHHHHhccCc
Q 044786          132 NMELGKQVHGLLFKLGSSRNISLTGSLINFYGK--FR----CLEDADFVFSQLKRH-------NTVVWTAKIVNNCREGH  198 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~~~~  198 (340)
                      .+++...+++.+.+.|+..+..+|-+.......  ..    ....|.++|+.|++.       +-.++..++..  ..++
T Consensus        77 ~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   77 AFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            366777888999999998888777653333333  22    356788999999854       34455555543  2333


Q ss_pred             ----hhHHHHHHHHHhhcccCCCh--hhHHHHHHhcccCCchh-chHHHHHHHHHHhCCCccHHHHHHH
Q 044786          199 ----FHQVFNDFKEMGRERIKKNS--YTFSSVLKACGGVDDDG-NCGRQMHANIVKIGLESDEYVQCGL  260 (340)
Q Consensus       199 ----~~~a~~~~~~m~~~~~~p~~--~t~~~ll~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l  260 (340)
                          .+.+..+|+.+.+.|+..+-  ...+.++..+....... .-+..+++.+.+.|+++....|..+
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence                45677888888888877643  33444444333222221 1266778889999999888877544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.21  E-value=0.56  Score=38.12  Aligned_cols=75  Identities=9%  Similarity=0.071  Sum_probs=51.8

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHH-----cCCCCchhH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFK-----LGSSRNISL  154 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  154 (340)
                      +..++..+...|+++.+...++++....      +.+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~d------p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~  229 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELD------PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPEL  229 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC------ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHH
Confidence            4556666777777777777777777774      56777777778888877777777777776654     466666655


Q ss_pred             HHHHHH
Q 044786          155 TGSLIN  160 (340)
Q Consensus       155 ~~~l~~  160 (340)
                      ......
T Consensus       230 ~~~y~~  235 (280)
T COG3629         230 RALYEE  235 (280)
T ss_pred             HHHHHH
Confidence            544333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.09  E-value=0.24  Score=27.48  Aligned_cols=39  Identities=10%  Similarity=-0.078  Sum_probs=25.7

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNR   51 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~   51 (340)
                      .++..+...+.+.|++++|.++|+...+.  .+-|...+..
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~--~P~~~~a~~~   40 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALAL--DPDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCHHHHHH
Confidence            45666777777778888888888877766  3334444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.05  E-value=1.6  Score=37.16  Aligned_cols=22  Identities=0%  Similarity=-0.034  Sum_probs=17.5

Q ss_pred             HHHHcccChhHHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ..|.+.|++..|...|++....
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~  237 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSF  237 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHH
Confidence            4678899999999998886544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.93  E-value=2.1  Score=35.54  Aligned_cols=127  Identities=9%  Similarity=0.091  Sum_probs=76.6

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHh--c----CChhHHHHHHhhcCcC-------CcccHHHHHHHHHccc
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVS--C----GQLDTARQLFDEMPLR-------DFNSWAVMIVGYVDVA   91 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~--~----~~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~~g   91 (340)
                      .+++.+++++.|.+. |++-+..+|-+.......  .    .....|.++|+.|++.       +-.++..++..  ...
T Consensus        77 ~~~~~~~~y~~L~~~-gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~  153 (297)
T PF13170_consen   77 AFKEVLDIYEKLKEA-GFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSE  153 (297)
T ss_pred             HHHHHHHHHHHHHHh-ccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccc
Confidence            466678899999999 998888777664443333  2    2356788888888842       33455555544  222


Q ss_pred             C----hhHHHHHHHHHHHhhcCCccccchH-HHHHHHHHHhhhccc--hhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           92 D----YQECITLFAEMMKRKKGHMLLVFPA-WIIVCVLKACVCTMN--MELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        92 ~----~~~a~~~~~~m~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      +    .+.++.+|+.+.+.|  .  .+-+. .....++..+.....  ...+.++++.+.+.|+++....|..+
T Consensus       154 ~~e~l~~~~E~~Y~~L~~~~--f--~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  154 DVEELAERMEQCYQKLADAG--F--KKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             cHHHHHHHHHHHHHHHHHhC--C--CCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence            2    345677777777753  3  12233 233333333332222  45777888888888887776665443

>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=93.89  E-value=0.85  Score=34.58  Aligned_cols=63  Identities=6%  Similarity=0.023  Sum_probs=32.8

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF  144 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  144 (340)
                      .+..+..-|.+.|+.+.|.+.|.++.+.-.++   ..-...+-.+++.+...+++..+........
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~---~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSP---GHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCH---HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34555556666666666666666655542111   2223344555555555555555555554443

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.52  E-value=1.7  Score=30.76  Aligned_cols=91  Identities=14%  Similarity=0.053  Sum_probs=58.7

Q ss_pred             HHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc
Q 044786           55 MHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM  131 (340)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (340)
                      +.+..|+++.|++.|.+..   ......||.-..++--.|+.++|++-+++..+.. |.. -+.--..|..-...|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLa-g~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELA-GDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhc-Ccc-chHHHHHHHHHHHHHHHhC
Confidence            4567788888888887755   3466678888888888888888888888887764 220 0111123333334455566


Q ss_pred             chhhHHHHHHHHHHcC
Q 044786          132 NMELGKQVHGLLFKLG  147 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~  147 (340)
                      +-+.|..=|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            6777777676666665

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.51  E-value=2.4  Score=31.66  Aligned_cols=54  Identities=19%  Similarity=0.269  Sum_probs=38.3

Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHH
Q 044786           30 FELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMI   84 (340)
Q Consensus        30 ~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li   84 (340)
                      .+.++.+.+. +++|+...+..+++.+.+.|++....++++.=.-+|.......+
T Consensus        14 lEYirSl~~~-~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~L   67 (167)
T PF07035_consen   14 LEYIRSLNQH-NIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQL   67 (167)
T ss_pred             HHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHH
Confidence            4555556666 88888889999999999998888888777665545544443333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.42  E-value=5.2  Score=35.31  Aligned_cols=55  Identities=16%  Similarity=0.075  Sum_probs=34.4

Q ss_pred             HHHHHHHhhcCHHHHHHHHHHcccC-----ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          157 SLINFYGKFRCLEDADFVFSQLKRH-----NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      .+..+..+.|+.++|.+.+++|.+.     +......|+.++...+.+.++..++.+-.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3455555667777777777776532     223455667777777777777777766543

The molecular function of this protein is uncertain.

>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=93.36  E-value=1  Score=34.20  Aligned_cols=58  Identities=17%  Similarity=0.092  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHcccCC------hhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKRHN------TVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      .+..+.+.|++.|+.++|.+.|.++.+..      ...+-.+|+.....+++..+...+.+...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            45566677777777777777777765442      22355566666667777777666666543

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.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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=93.29  E-value=0.037  Score=40.33  Aligned_cols=90  Identities=11%  Similarity=0.107  Sum_probs=68.7

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccC
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~   92 (340)
                      ...+|+.+.+.+.+.....+++.+... +-..+....+.++..|++.++.+...++++....   .-...++..+.+.|.
T Consensus        10 ~~~vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   10 ISEVISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGL   85 (143)
T ss_dssp             SCCCHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTS
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcch
Confidence            345788888899999999999999987 6667799999999999999998999998884332   334556777777777


Q ss_pred             hhHHHHHHHHHHHh
Q 044786           93 YQECITLFAEMMKR  106 (340)
Q Consensus        93 ~~~a~~~~~~m~~~  106 (340)
                      ++++.-++.++...
T Consensus        86 ~~~a~~Ly~~~~~~   99 (143)
T PF00637_consen   86 YEEAVYLYSKLGNH   99 (143)
T ss_dssp             HHHHHHHHHCCTTH
T ss_pred             HHHHHHHHHHcccH
Confidence            77777777765443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.25  E-value=2.3  Score=30.79  Aligned_cols=93  Identities=8%  Similarity=0.027  Sum_probs=66.6

Q ss_pred             HHHHHhCCCccH--HHHHHHHHHHhccCCHHHHHHHHHHhhc--------CCcHHHHHHHHHHHHHcCc-hHHHHHHHHH
Q 044786          243 ANIVKIGLESDE--YVQCGLVDMYGKCRLLRDAERVFELIVD--------KKNIASWNAMLVGYIRNGL-YVEATKFLYL  311 (340)
Q Consensus       243 ~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~~~~--------~~~~~~~~~li~~~~~~~~-~~~a~~~~~~  311 (340)
                      ..+.+.+..++.  ...|.++.-....+++.....+++.+..        ..+..+|++++.+..+..- .--+..+|.-
T Consensus        26 ~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~  105 (145)
T PF13762_consen   26 PYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNF  105 (145)
T ss_pred             HHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHH
Confidence            334444555544  3346666666667777777777766642        2356689999999976665 4456788999


Q ss_pred             HHHcCCccchhHHHHHHHHhhhcC
Q 044786          312 MKASGIQIQESLINDLRIACSSIS  335 (340)
Q Consensus       312 m~~~g~~~~~~t~~~ll~a~~~~g  335 (340)
                      |++.+.++++.-|..+|.+|.+.-
T Consensus       106 Lk~~~~~~t~~dy~~li~~~l~g~  129 (145)
T PF13762_consen  106 LKKNDIEFTPSDYSCLIKAALRGY  129 (145)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHcCC
Confidence            999999999999999999998753

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.19  E-value=2.3  Score=30.65  Aligned_cols=75  Identities=9%  Similarity=-0.015  Sum_probs=40.4

Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      ..+.|++++|.+.|+.+...-...   +.....--.++.++.+.++++.|...+++.++..+..-..-|...+.+++.
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g---~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFG---EYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCC---cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            345666666666666666652111   223345555666666666666666666666665544333344444444433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=93.19  E-value=4  Score=33.31  Aligned_cols=70  Identities=11%  Similarity=0.105  Sum_probs=56.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH-----cCCccchhHHH
Q 044786          256 VQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKA-----SGIQIQESLIN  325 (340)
Q Consensus       256 ~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~t~~  325 (340)
                      +++..-..|..+|.+.+|.++.++...  +-+...|-.|++.+...|+--.|.+-+++|.+     .|+..|...+.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsiee  357 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEE  357 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHH
Confidence            445666788999999999999999875  34778899999999999998888888887743     48877766554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.14  E-value=3.7  Score=32.82  Aligned_cols=54  Identities=13%  Similarity=0.031  Sum_probs=28.3

Q ss_pred             HHHHHHhhcCHHHHHHHHHHcccC------ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          158 LINFYGKFRCLEDADFVFSQLKRH------NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      +.+.|.+.|.+..|..-+++|.+.      .....-.+..+|...|..++|...-+-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            345566666666666656555533      112234455566666666666555444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.13  E-value=5.8  Score=35.04  Aligned_cols=79  Identities=11%  Similarity=0.131  Sum_probs=53.6

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhc-CC---cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCC-ccchhHHHHHHHHhh
Q 044786          258 CGLVDMYGKCRLLRDAERVFELIVD-KK---NIASWNAMLVGYIRNGLYVEATKFLYLMKASGI-QIQESLINDLRIACS  332 (340)
Q Consensus       258 ~~li~~~~~~~~~~~A~~~~~~~~~-~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~t~~~ll~a~~  332 (340)
                      ..+..++-+.|+.++|.+.|+++.+ .|   +......|+.++...+.+.++..++.+-.+... +--...|+..|-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            4466666778888888888888864 23   334667788888888888888888888643322 122356777666555


Q ss_pred             hcCc
Q 044786          333 SISA  336 (340)
Q Consensus       333 ~~g~  336 (340)
                      ..|+
T Consensus       343 av~d  346 (539)
T PF04184_consen  343 AVGD  346 (539)
T ss_pred             hhcc
Confidence            5554

The molecular function of this protein is uncertain.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.11  E-value=7.5  Score=36.26  Aligned_cols=155  Identities=12%  Similarity=0.077  Sum_probs=89.6

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCC---CHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccCh
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKP---TLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADY   93 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~   93 (340)
                      |+=+.+.+.+++|+++-+.-.   |..|   ........|..+.-.|+.++|-...-.|...+..-|.--+.-+...++.
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~---~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l  439 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASI---GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQL  439 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhcc---CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhcccccc
Confidence            334456677788877766554   4555   4567778888888888888888888777766666666666666655554


Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHH---------cC-------CCCchhHHHH
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFK---------LG-------SSRNISLTGS  157 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------~~-------~~~~~~~~~~  157 (340)
                      .....+   +..   |.+  +.+...|..++..+.. .+...-.++.++.-.         ..       -.-+...-..
T Consensus       440 ~~Ia~~---lPt---~~~--rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~  510 (846)
T KOG2066|consen  440 TDIAPY---LPT---GPP--RLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEV  510 (846)
T ss_pred             chhhcc---CCC---CCc--ccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHH
Confidence            432221   111   110  2344455666655555 222222111111000         00       0112233455


Q ss_pred             HHHHHHhhcCHHHHHHHHHHcccCCh
Q 044786          158 LINFYGKFRCLEDADFVFSQLKRHNT  183 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~~~  183 (340)
                      |...|...+++++|..++-...++++
T Consensus       511 La~LYl~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  511 LAHLYLYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             HHHHHHHccChHHHHHHHHhccChHH
Confidence            88999999999999999888776643

>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=92.98  E-value=4.5  Score=33.34  Aligned_cols=218  Identities=12%  Similarity=0.040  Sum_probs=114.6

Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHH-----HHHHHHHHhhhcc-chhhHHHHHHHHHHc--------CCCCch-
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAW-----IIVCVLKACVCTM-NMELGKQVHGLLFKL--------GSSRNI-  152 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~-----~~~~ll~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~-  152 (340)
                      .+.|+.+.|..++.+...... .  ..|+..     ++..+.......+ +++.|...+++..+.        ...|+. 
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~-~--~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~   80 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLN-S--LDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGS   80 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHh-c--CCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHH
Confidence            355666666666666655421 1  122221     2333344444455 666666665544332        122332 


Q ss_pred             ----hHHHHHHHHHHhhcCHH---HHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHH
Q 044786          153 ----SLTGSLINFYGKFRCLE---DADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFS  222 (340)
Q Consensus       153 ----~~~~~l~~~~~~~~~~~---~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  222 (340)
                          .+...++.+|...+..+   +|.++++.+..  + ...++-.-++.+.+.++.+++.+.+.+|...- .-....+.
T Consensus        81 elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~  159 (278)
T PF08631_consen   81 ELRLSILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHH
Confidence                35667788888877654   56666666643  2 34456566777777899999999999998862 21334444


Q ss_pred             HHHHhc---ccCCchhchHHHHHHHHHHhCCCccHH-HHH-HHHHH---Hhcc------CCHHHHHHHHHHhhc---CC-
Q 044786          223 SVLKAC---GGVDDDGNCGRQMHANIVKIGLESDEY-VQC-GLVDM---YGKC------RLLRDAERVFELIVD---KK-  284 (340)
Q Consensus       223 ~ll~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~li~~---~~~~------~~~~~A~~~~~~~~~---~~-  284 (340)
                      .++..+   ..... .. +...+..+....+.|... ... .++..   ..+.      ++++...++++.+..   +| 
T Consensus       160 ~~l~~i~~l~~~~~-~~-a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~l  237 (278)
T PF08631_consen  160 SILHHIKQLAEKSP-EL-AAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQL  237 (278)
T ss_pred             HHHHHHHHHHhhCc-HH-HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCC
Confidence            444444   33332 23 444444444444555443 111 11111   1111      125555556664332   11 


Q ss_pred             ---cHHHHHHH----HHHHHHcCchHHHHHHHHH
Q 044786          285 ---NIASWNAM----LVGYIRNGLYVEATKFLYL  311 (340)
Q Consensus       285 ---~~~~~~~l----i~~~~~~~~~~~a~~~~~~  311 (340)
                         ...+..++    ...+.+.+++++|.++|+-
T Consensus       238 s~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  238 SAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence               22222233    2346688999999999984

It is also involved in sporulation [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.78  E-value=2.5  Score=29.91  Aligned_cols=55  Identities=13%  Similarity=0.001  Sum_probs=35.8

Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      +....|+.+.|++.|.+.+..-      +-....||.-..++.-.|+.++|+.=+++.++.
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~------P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA------PERASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc------ccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            4566677777777777776652      345566676666666667777666666655543

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

Probab=92.78  E-value=0.26  Score=25.92  Aligned_cols=25  Identities=16%  Similarity=0.308  Sum_probs=16.4

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMM  104 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~  104 (340)
                      |+.|...|.+.|++++|+++|++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566667777777777777777744

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.52  E-value=5.1  Score=32.79  Aligned_cols=119  Identities=8%  Similarity=-0.030  Sum_probs=66.5

Q ss_pred             HHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCCh----hhHHHHHHHHhccCchh
Q 044786          125 KACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNT----VVWTAKIVNNCREGHFH  200 (340)
Q Consensus       125 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~li~~~~~~~~~~  200 (340)
                      ......|++.+|...|+........ +...-..+.++|...|+.+.|..++..+.....    .....-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            3445667888888888777766544 344556677888888888888888888764311    11122233344444444


Q ss_pred             HHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          201 QVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       201 ~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                      +...+-++.-.   .| |...-..+-..+...|+.+.+...++..+.+
T Consensus       221 ~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         221 EIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44444444333   24 3333334444555556665555555555554

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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=92.13  E-value=0.1  Score=37.97  Aligned_cols=86  Identities=15%  Similarity=0.100  Sum_probs=58.5

Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHH
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQV  202 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  202 (340)
                      ++..+.+.+.++...++++.+...+...+....+.++..|++.++.++..++++...   ..-...++..|.+.|.+++|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~---~yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN---NYDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS---SS-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc---ccCHHHHHHHHHhcchHHHH
Confidence            456666777778888888888876666677788888888888877777777766322   23345566677777777777


Q ss_pred             HHHHHHHhh
Q 044786          203 FNDFKEMGR  211 (340)
Q Consensus       203 ~~~~~~m~~  211 (340)
                      .-++.++..
T Consensus        90 ~~Ly~~~~~   98 (143)
T PF00637_consen   90 VYLYSKLGN   98 (143)
T ss_dssp             HHHHHCCTT
T ss_pred             HHHHHHccc
Confidence            777766543

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.57  E-value=6.1  Score=31.65  Aligned_cols=123  Identities=15%  Similarity=0.134  Sum_probs=61.0

Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh-
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF-  165 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  165 (340)
                      -.+.|++++|.+.|+.+.....+-   +....+.-.++-++.+.++++.|....++..+.-+.....-|..-|.+++.. 
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s---~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~  120 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFS---PYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFF  120 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC---cccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Confidence            345666666666666666553111   2334455555666666666666666666655543322222333333333322 


Q ss_pred             ------cCHHHHHHHHHHcc---cC--------Chh----------h--HHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          166 ------RCLEDADFVFSQLK---RH--------NTV----------V--WTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       166 ------~~~~~a~~~~~~~~---~~--------~~~----------~--~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                            .+...+.+.|..+.   ++        |+.          .  =-.+.+-|.+.|.+..|..-+++|.+.
T Consensus       121 ~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         121 QIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             cCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence                  22223333333322   11        111          0  112345677777777787777777765

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.51  E-value=13  Score=35.21  Aligned_cols=18  Identities=11%  Similarity=0.043  Sum_probs=12.0

Q ss_pred             HhccCCHHHHHHHHHHhh
Q 044786          264 YGKCRLLRDAERVFELIV  281 (340)
Q Consensus       264 ~~~~~~~~~A~~~~~~~~  281 (340)
                      +-..+++++|.+.++.+.
T Consensus       500 le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  500 LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHhcCHHHHHHHHhcCC
Confidence            334567777777777764

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.50  E-value=9  Score=33.48  Aligned_cols=72  Identities=17%  Similarity=0.124  Sum_probs=39.1

Q ss_pred             HHHHHHHhCCCccHH-HHHHHHHHHhccCCHHHHHHHHHHhhc-------CCcHHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          241 MHANIVKIGLESDEY-VQCGLVDMYGKCRLLRDAERVFELIVD-------KKNIASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       241 ~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~A~~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                      +.......-+.|+-. +...|+..+.+  +.+++..+.+.+..       +.=+.++..++....+.++..+|.+.+.-+
T Consensus       247 ~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL  324 (549)
T PF07079_consen  247 ILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALL  324 (549)
T ss_pred             HHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            333334444555433 33444444444  45555555444432       123456777777777777777777776665


Q ss_pred             HH
Q 044786          313 KA  314 (340)
Q Consensus       313 ~~  314 (340)
                      ..
T Consensus       325 ~~  326 (549)
T PF07079_consen  325 KI  326 (549)
T ss_pred             Hh
Confidence            43

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.12  E-value=0.74  Score=24.74  Aligned_cols=28  Identities=25%  Similarity=0.291  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          287 ASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       287 ~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      .+++.|...|...|++++|+.++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4667777788888888888887777643

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.07  E-value=5.1  Score=29.92  Aligned_cols=124  Identities=8%  Similarity=-0.014  Sum_probs=74.9

Q ss_pred             cchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHH
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNN  193 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~  193 (340)
                      +|+...+..+++.+.+.|++....    .+.+.++-+|.......+-.+.  +....+.++=-+|.++=...+..+++.+
T Consensus        26 ~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~~~~~~iievL   99 (167)
T PF07035_consen   26 PVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLGTAYEEIIEVL   99 (167)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            788889999999999998865444    4555666666555444443222  2333444444444443333566777888


Q ss_pred             hccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHh
Q 044786          194 CREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       194 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                      ...|++-+|+++.+.....    +......++.+-.+.++. .....+++.....
T Consensus       100 L~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~-~lf~~V~~ff~~~  149 (167)
T PF07035_consen  100 LSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDD-QLFYAVFRFFEER  149 (167)
T ss_pred             HhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCH-HHHHHHHHHHHHh
Confidence            8999999999998876332    122234566666666664 2255555555544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=91.03  E-value=13  Score=34.48  Aligned_cols=142  Identities=14%  Similarity=0.052  Sum_probs=75.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-CCcc------------cHHHHHHHHHcccChhHHHHHHHHHHHhhcC
Q 044786           43 KPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-RDFN------------SWAVMIVGYVDVADYQECITLFAEMMKRKKG  109 (340)
Q Consensus        43 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~------------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  109 (340)
                      .|.+..|..|.......-.++.|+..|=+... +.+.            .-.+=|.+|  -|++++|+++|-+|-.++  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhh--
Confidence            57788888888777777777777777755441 1111            112222332  478888888887776552  


Q ss_pred             CccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc----hhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhh
Q 044786          110 HMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN----ISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVV  185 (340)
Q Consensus       110 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  185 (340)
                                  ..+....+.|++-.+.++++   ..|-..|    ...++.+.+.+.....|++|.+.|..-...    
T Consensus       765 ------------LAielr~klgDwfrV~qL~r---~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~----  825 (1189)
T KOG2041|consen  765 ------------LAIELRKKLGDWFRVYQLIR---NGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT----  825 (1189)
T ss_pred             ------------hhHHHHHhhhhHHHHHHHHH---ccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch----
Confidence                        23444555666655554433   2121111    234556666666666666666666543211    


Q ss_pred             HHHHHHHHhccCchhHHHHHHHH
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKE  208 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~  208 (340)
                       ...+.++.+...+++-..+-+.
T Consensus       826 -e~~~ecly~le~f~~LE~la~~  847 (1189)
T KOG2041|consen  826 -ENQIECLYRLELFGELEVLART  847 (1189)
T ss_pred             -HhHHHHHHHHHhhhhHHHHHHh
Confidence             2234444444444444444333

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.03  E-value=6.8  Score=31.21  Aligned_cols=202  Identities=10%  Similarity=0.066  Sum_probs=109.3

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      |.-...+|-...++++|...+.+..+..      ..+...|+ ..      ..++.|-.+.+++.+..  --+..|+...
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~y------Ennrslfh-AA------KayEqaamLake~~kls--Evvdl~eKAs   98 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKGY------ENNRSLFH-AA------KAYEQAAMLAKELSKLS--EVVDLYEKAS   98 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHHH------HhcccHHH-HH------HHHHHHHHHHHHHHHhH--HHHHHHHHHH
Confidence            4445556667777777777776665432      22222222 12      23444555555554432  1234567777


Q ss_pred             HHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhc---c--cCCChhhHHHHHHhcccCCch
Q 044786          160 NFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE---R--IKKNSYTFSSVLKACGGVDDD  234 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~--~~p~~~t~~~ll~~~~~~~~~  234 (340)
                      ..|..+|..+.|-..+++.-+            ...+.++++|+.+|++-..-   +  .+--...|..+-..+.+...+
T Consensus        99 ~lY~E~GspdtAAmaleKAak------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf  166 (308)
T KOG1585|consen   99 ELYVECGSPDTAAMALEKAAK------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKF  166 (308)
T ss_pred             HHHHHhCCcchHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHh
Confidence            788888887777666665321            11234445555555443221   0  000112233444455666666


Q ss_pred             hchHHHHHHHHH---HhCCCccH-HHHHHHHHHHhccCCHHHHHHHHHHhhc------CCcHHHHHHHHHHHHHcCchHH
Q 044786          235 GNCGRQMHANIV---KIGLESDE-YVQCGLVDMYGKCRLLRDAERVFELIVD------KKNIASWNAMLVGYIRNGLYVE  304 (340)
Q Consensus       235 ~~~~~~~~~~~~---~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~  304 (340)
                      .+++..+.....   +..--++. ..|-..|-.|.-..++..|++.++.--+      +.+..+...|+.+|- .|+.++
T Consensus       167 ~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~  245 (308)
T KOG1585|consen  167 TEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEE  245 (308)
T ss_pred             hHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHH
Confidence            665555443221   11112222 3455666677777899999999987433      236678888888874 567777


Q ss_pred             HHHHH
Q 044786          305 ATKFL  309 (340)
Q Consensus       305 a~~~~  309 (340)
                      +.+++
T Consensus       246 ~~kvl  250 (308)
T KOG1585|consen  246 IKKVL  250 (308)
T ss_pred             HHHHH
Confidence            66554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=90.98  E-value=10  Score=33.16  Aligned_cols=143  Identities=13%  Similarity=0.097  Sum_probs=76.4

Q ss_pred             ChhhHHHHHHHHhccCchhHHHHHHHHHhhcc-cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHH
Q 044786          182 NTVVWTAKIVNNCREGHFHQVFNDFKEMGRER-IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGL  260 (340)
Q Consensus       182 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  260 (340)
                      -..+|...|.+-.+..-.+.|..+|-+..+.| +.++...+++++.-++....  ..+..+++.=... ++-++.--+-.
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~--~ta~~ifelGl~~-f~d~~~y~~ky  472 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDR--ATAYNIFELGLLK-FPDSTLYKEKY  472 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCc--chHHHHHHHHHHh-CCCchHHHHHH
Confidence            34455566666666666666666776666666 45566666666666554433  2255555433222 12222222445


Q ss_pred             HHHHhccCCHHHHHHHHHHhhcC--Cc--HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHH
Q 044786          261 VDMYGKCRLLRDAERVFELIVDK--KN--IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRI  329 (340)
Q Consensus       261 i~~~~~~~~~~~A~~~~~~~~~~--~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~  329 (340)
                      +..+...++-+.|..+|+....+  .+  ...|..+|.-=..-|+...+..+=++|.+.  -|...+...+.+
T Consensus       473 l~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~S  543 (660)
T COG5107         473 LLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTS  543 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHH
Confidence            55556666666777777643321  11  345666666666666666666666666443  344444333333

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.76  E-value=8.9  Score=32.11  Aligned_cols=149  Identities=3%  Similarity=-0.095  Sum_probs=98.3

Q ss_pred             hcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhh-cCCccccchHHHHHHHHHHhhhccch
Q 044786           58 SCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRK-KGHMLLVFPAWIIVCVLKACVCTMNM  133 (340)
Q Consensus        58 ~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~~~~~~ll~~~~~~~~~  133 (340)
                      -.|++.+|-..++++.+   .|..+++.--.++.-.|+.+.....++++...- .++   +-.+.+-....-++...|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dl---p~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADL---PCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCC---cHHHHHHHHHHhhHHHhccc
Confidence            34677777777777763   366677777788888888888888888876552 122   22333444444555677888


Q ss_pred             hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC----C---hhhHHHHHHHHhccCchhHHHHHH
Q 044786          134 ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH----N---TVVWTAKIVNNCREGHFHQVFNDF  206 (340)
Q Consensus       134 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~---~~~~~~li~~~~~~~~~~~a~~~~  206 (340)
                      ++|++.-++..+.+.. |.....++...+-..|+..++.+...+-...    .   ..-|-...-.+...+.++.|+++|
T Consensus       192 ~dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            8888888777776633 5666677777888888888888876655432    1   111333344556678899999998


Q ss_pred             HHHh
Q 044786          207 KEMG  210 (340)
Q Consensus       207 ~~m~  210 (340)
                      +.-.
T Consensus       271 D~ei  274 (491)
T KOG2610|consen  271 DREI  274 (491)
T ss_pred             HHHH
Confidence            7643

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=90.49  E-value=8.6  Score=31.48  Aligned_cols=137  Identities=12%  Similarity=0.136  Sum_probs=92.4

Q ss_pred             chhHHHHHHHHHhh-cccCCChhhHHHHHHhccc-CCchhchHHHHHHHHH-HhCCCccHHHHHHHHHHHhccCCHHHHH
Q 044786          198 HFHQVFNDFKEMGR-ERIKKNSYTFSSVLKACGG-VDDDGNCGRQMHANIV-KIGLESDEYVQCGLVDMYGKCRLLRDAE  274 (340)
Q Consensus       198 ~~~~a~~~~~~m~~-~~~~p~~~t~~~ll~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~li~~~~~~~~~~~A~  274 (340)
                      .+.+|+.+|+.... ..+--|..+...+++.... .+..-.+..++...+. ..+-.++..+...+++.+++.+++..-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34566677764322 2345566677777776654 2222233444444444 3345678888889999999999999999


Q ss_pred             HHHHHhhcC----CcHHHHHHHHHHHHHcCchHHHHHHHHH-----HHHcCCccchhHHHHHHHHhhhc
Q 044786          275 RVFELIVDK----KNIASWNAMLVGYIRNGLYVEATKFLYL-----MKASGIQIQESLINDLRIACSSI  334 (340)
Q Consensus       275 ~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~-----m~~~g~~~~~~t~~~ll~a~~~~  334 (340)
                      ++++.-...    .|...|..+|......|+..-..++.++     ++..|+..++..-..+-+.+...
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~v  291 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKKV  291 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHhc
Confidence            999887653    4888999999999999998766666555     34446677777666665555443

>PRK11906 transcriptional regulator; Provisional

Probab=90.32  E-value=12  Score=32.91  Aligned_cols=139  Identities=9%  Similarity=-0.029  Sum_probs=81.8

Q ss_pred             ChhHHHHHHhhcC---cCCc---ccHHHHHHHHH---------cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           61 QLDTARQLFDEMP---LRDF---NSWAVMIVGYV---------DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        61 ~~~~a~~~~~~~~---~~~~---~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      ..+.|..+|.+..   +-|+   ..|..+..++.         ...+..+|.++-++..+.+      +.|......+..
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld------~~Da~a~~~~g~  346 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT------TVDGKILAIMGL  346 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC------CCCHHHHHHHHH
Confidence            4567888888776   3332   23333332221         1234456677777777765      567777777777


Q ss_pred             HhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC-----hhhHHHHHHHHhccCchh
Q 044786          126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN-----TVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~  200 (340)
                      +....++++.+...|++....++. ...+|....-...-.|+.++|.+.+++..+-+     .......|..|+..+ .+
T Consensus       347 ~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~  424 (458)
T PRK11906        347 ITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LK  424 (458)
T ss_pred             HHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hh
Confidence            777777788888888888777543 33444444444555788888888888754332     223333344555443 45


Q ss_pred             HHHHHHH
Q 044786          201 QVFNDFK  207 (340)
Q Consensus       201 ~a~~~~~  207 (340)
                      .|+.+|-
T Consensus       425 ~~~~~~~  431 (458)
T PRK11906        425 NNIKLYY  431 (458)
T ss_pred             hhHHHHh
Confidence            5555553

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.04  E-value=6.6  Score=29.47  Aligned_cols=128  Identities=11%  Similarity=0.006  Sum_probs=68.2

Q ss_pred             hHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHH-----HHHhccCchhHHHHHHHHHhhcccCCChh-hHHHHHH
Q 044786          153 SLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKI-----VNNCREGHFHQVFNDFKEMGRERIKKNSY-TFSSVLK  226 (340)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li-----~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll~  226 (340)
                      ..|..-++ +...+..++|+.-|..+.+.+.-.|-.|.     ....+.|+...|...|.+.-...-.|-.. -...+=.
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            34443333 34556777888888887776555554432     34456788888888888887654344322 1111212


Q ss_pred             h--cccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          227 A--CGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       227 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      +  +...|.+++ ...-.+-+...+-+.-...-..|--+-.+.|++..|.+.|+.+..
T Consensus       139 a~lLvD~gsy~d-V~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         139 AYLLVDNGSYDD-VSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHhccccHHH-HHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            2  344555544 222222222222222333344555555667777777777776654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.92  E-value=0.97  Score=37.06  Aligned_cols=109  Identities=6%  Similarity=0.002  Sum_probs=63.7

Q ss_pred             hcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHH--hCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc---CCc
Q 044786          211 RERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVK--IGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD---KKN  285 (340)
Q Consensus       211 ~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~  285 (340)
                      ..|......+...++..-.....++++...++..-..  .-..|+...+ +.++.+.+ -+++++..++..=..   -||
T Consensus        57 ~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             hcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcchhccccc
Confidence            3455556667777777666666766644444332221  1112222222 23333333 245566655543322   278


Q ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccch
Q 044786          286 IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE  321 (340)
Q Consensus       286 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  321 (340)
                      ..+++.+|+.+.+.+++.+|.++.-.|.....--++
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~qe~~~ne  170 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQEAFENE  170 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHHHHhhhH
Confidence            899999999999999999999988887666433333

>PRK09687 putative lyase; Provisional

Probab=89.76  E-value=10  Score=31.28  Aligned_cols=141  Identities=9%  Similarity=-0.064  Sum_probs=83.6

Q ss_pred             cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHH
Q 044786          180 RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCG  259 (340)
Q Consensus       180 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (340)
                      .++..+-...+.++.+.++ .+++..+-.+.+   .+|...-...+.++.+.+.-...+...+..+.   -.++..+-..
T Consensus       139 D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L---~D~~~~VR~~  211 (280)
T PRK09687        139 DKSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAML---QDKNEEIRIE  211 (280)
T ss_pred             CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHh---cCCChHHHHH
Confidence            3455555556666666665 456666655554   24445555555666654321111222222222   2456666777


Q ss_pred             HHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhh
Q 044786          260 LVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSS  333 (340)
Q Consensus       260 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~  333 (340)
                      .+.++.+.++.+....+.+.+ ..+++  .-..+.++...|.. +|+..+.++...  .||..+-...+.+|.+
T Consensus       212 A~~aLg~~~~~~av~~Li~~L-~~~~~--~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~~  279 (280)
T PRK09687        212 AIIGLALRKDKRVLSVLIKEL-KKGTV--GDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLKR  279 (280)
T ss_pred             HHHHHHccCChhHHHHHHHHH-cCCch--HHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHhc
Confidence            888888888754444444444 34443  34677888888885 688888888764  4588877777877764

>PRK09687 putative lyase; Provisional

Probab=89.70  E-value=10  Score=31.25  Aligned_cols=235  Identities=9%  Similarity=-0.046  Sum_probs=147.7

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccCh----hHHHHHHHHHHHhhcCCccccchHHH
Q 044786           44 PTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADY----QECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        44 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      +|..+....+..+...|..+-...+..-+..+|...=...+.++...|+.    .++...+..+...       .++..+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~-------D~d~~V  107 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE-------DKSACV  107 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc-------CCCHHH
Confidence            46677777777887777654444444444466776667778888888864    4577777776554       577777


Q ss_pred             HHHHHHHhhhccchhh--HHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccC
Q 044786          120 IVCVLKACVCTMNMEL--GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREG  197 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~--a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~  197 (340)
                      -...+.++...+....  -.+....+...-..++..+-...+.++.+.++-+....+..-+..++...-...+.++.+.+
T Consensus       108 R~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~~~  187 (280)
T PRK09687        108 RASAINATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNSNK  187 (280)
T ss_pred             HHHHHHHHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcCC
Confidence            7777777766643221  12233333333334466666778888888887555555555556666666666666666653


Q ss_pred             -chhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHH
Q 044786          198 -HFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERV  276 (340)
Q Consensus       198 -~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  276 (340)
                       ...++...+..+..   .++...-...+.++.+.++. ++...+.+.+.. +   +  ..-..+.++...|.. +|...
T Consensus       188 ~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~-~---~--~~~~a~~ALg~ig~~-~a~p~  256 (280)
T PRK09687        188 YDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKK-G---T--VGDLIIEAAGELGDK-TLLPV  256 (280)
T ss_pred             CCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcC-C---c--hHHHHHHHHHhcCCH-hHHHH
Confidence             24466666666664   46777778888888888885 545555555443 2   2  234677888888885 57777


Q ss_pred             HHHhhc-CCcHHHHHHHHHHH
Q 044786          277 FELIVD-KKNIASWNAMLVGY  296 (340)
Q Consensus       277 ~~~~~~-~~~~~~~~~li~~~  296 (340)
                      +..+.. .+|..+-..-+.++
T Consensus       257 L~~l~~~~~d~~v~~~a~~a~  277 (280)
T PRK09687        257 LDTLLYKFDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHHhhCCChhHHHHHHHHH
Confidence            777664 56666555444444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=89.62  E-value=12  Score=31.79  Aligned_cols=214  Identities=8%  Similarity=0.081  Sum_probs=118.6

Q ss_pred             hccchhhHHHHHHHHHhhcC-CCCCHHHHHHHHHHHHhcCChhHHHHHHh----hcCc-CC----cccHHHHHHHHHccc
Q 044786           22 FQKDSAGAFELLNHIRKRVN-IKPTLLFLNRLLLMHVSCGQLDTARQLFD----EMPL-RD----FNSWAVMIVGYVDVA   91 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~----~~~~-~~----~~~~~~li~~~~~~g   91 (340)
                      ...+..+|+..|..-..+.. ...-..++..+..+.++.|..++++..--    ...+ .|    ...|-.+.+++-+.-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55677888888777665411 11123566777788888888877665421    1111 11    124555666666666


Q ss_pred             ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC-----CCCchhHHHHHHHHHHhhc
Q 044786           92 DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG-----SSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        92 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~  166 (340)
                      ++.+++.+-+.-.... |...-.........+..++...+.++++++.|+...+.-     ......+|..|.+.|.+..
T Consensus        98 ~f~kt~~y~k~~l~lp-gt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLP-GTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HhhhHHHHHHHHhcCC-CCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            6666666555544432 221101122344456777777888888888887665432     1223457788888888888


Q ss_pred             CHHHHHHHHHHcc-------cCChhh-HH-----HHHHHHhccCchhHHHHHHHHHhh----cccCCC-hhhHHHHHHhc
Q 044786          167 CLEDADFVFSQLK-------RHNTVV-WT-----AKIVNNCREGHFHQVFNDFKEMGR----ERIKKN-SYTFSSVLKAC  228 (340)
Q Consensus       167 ~~~~a~~~~~~~~-------~~~~~~-~~-----~li~~~~~~~~~~~a~~~~~~m~~----~~~~p~-~~t~~~ll~~~  228 (340)
                      ++++|.-...+..       -.|... |.     .|--++-..|+...|.+.-++..+    .|-+|. ......+-..|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            8888765544332       122221 22     234455666777777766666543    232222 12233444556


Q ss_pred             ccCCchhc
Q 044786          229 GGVDDDGN  236 (340)
Q Consensus       229 ~~~~~~~~  236 (340)
                      ...|+.+.
T Consensus       257 R~~gd~e~  264 (518)
T KOG1941|consen  257 RSRGDLER  264 (518)
T ss_pred             HhcccHhH
Confidence            66666654

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.53  E-value=9  Score=30.31  Aligned_cols=18  Identities=11%  Similarity=0.226  Sum_probs=12.6

Q ss_pred             hccCCHHHHHHHHHHhhc
Q 044786          265 GKCRLLRDAERVFELIVD  282 (340)
Q Consensus       265 ~~~~~~~~A~~~~~~~~~  282 (340)
                      +..+++.+|.++|+++..
T Consensus       165 a~leqY~~Ai~iyeqva~  182 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVAR  182 (288)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            455777788888877654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.52  E-value=6.5  Score=28.63  Aligned_cols=19  Identities=16%  Similarity=0.503  Sum_probs=8.5

Q ss_pred             HcccChhHHHHHHHHHHHh
Q 044786           88 VDVADYQECITLFAEMMKR  106 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~  106 (340)
                      ...|+|++|.++|++..+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3444444444444444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.48  E-value=2.7  Score=34.59  Aligned_cols=97  Identities=8%  Similarity=0.028  Sum_probs=49.5

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      +...++..-....+++.++..+-+++......   .....+-..+++.|.+ -+.++++.++..-.+.|+-||.++++.+
T Consensus        66 ~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~---~~~~~~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c~l  141 (418)
T KOG4570|consen   66 TVDRLVDVISSREEIDDAEYYLYKLRHSPNAW---YLRNWTIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFCLL  141 (418)
T ss_pred             ehhhhhhccccccchhHHHHHHHHHhcCcchh---hhccccHHHHHHHHHc-cChHHHHHHHhCcchhccccchhhHHHH
Confidence            34444444444555666665555554331111   0111111222222222 2455666666666666777777777777


Q ss_pred             HHHHHhhcCHHHHHHHHHHcc
Q 044786          159 INFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      ++.+.+.+++.+|.++.-.|.
T Consensus       142 ~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  142 MDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             HHHHHhcccHHHHHHHHHHHH
Confidence            777777777666666655554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.42  E-value=5.7  Score=35.93  Aligned_cols=39  Identities=23%  Similarity=0.182  Sum_probs=19.5

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQL   68 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~   68 (340)
                      -.|+++.|..++..+.+        ...+.+.+.+.+.|-.++|+++
T Consensus       598 mrrd~~~a~~vLp~I~k--------~~rt~va~Fle~~g~~e~AL~~  636 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPK--------EIRTKVAHFLESQGMKEQALEL  636 (794)
T ss_pred             hhccccccccccccCch--------hhhhhHHhHhhhccchHhhhhc
Confidence            34666666665444332        2233444445555555555554

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=89.31  E-value=2  Score=24.36  Aligned_cols=37  Identities=24%  Similarity=0.336  Sum_probs=31.8

Q ss_pred             HHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHh
Q 044786          295 GYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIAC  331 (340)
Q Consensus       295 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~  331 (340)
                      ...+.|-.+++..++++|.+.|+..++..+..+++-+
T Consensus        11 ~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~~   47 (48)
T PF11848_consen   11 LAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRRA   47 (48)
T ss_pred             HHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHHc
Confidence            3456788889999999999999999999999988753

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.25  E-value=0.58  Score=24.22  Aligned_cols=21  Identities=29%  Similarity=0.264  Sum_probs=9.9

Q ss_pred             chhHHHHHHHHHHhhcCHHHH
Q 044786          151 NISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      +...|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            344444444444444444444

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.05  E-value=2  Score=28.51  Aligned_cols=61  Identities=10%  Similarity=0.102  Sum_probs=45.2

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHH
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVG   86 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~   86 (340)
                      |.=++.+-+..+... .+-|++.+..+.+++|-|.+++..|.++|+.++.+   +...|..++.-
T Consensus        22 D~we~rr~mN~l~~~-DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGY-DLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHHH
Confidence            444556666666666 78899999999999999999999999999977722   33457666653

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

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

Probab=89.05  E-value=1.6  Score=22.20  Aligned_cols=29  Identities=17%  Similarity=0.211  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          287 ASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       287 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .+|..+...|...|++++|+..|++..+.
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            46777778888888888888888887654

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 ....

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

Probab=88.88  E-value=1.2  Score=22.64  Aligned_cols=28  Identities=14%  Similarity=0.428  Sum_probs=19.0

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +|..+...+...|++++|+..|++.++.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            4566666777777777777777777665

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 ....

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=88.80  E-value=3.5  Score=28.30  Aligned_cols=27  Identities=19%  Similarity=0.269  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          288 SWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       288 ~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      -|..|+.-|...|..++|++++.+..+
T Consensus        41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   41 KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            688889999999999999999998877

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.48  E-value=1.3  Score=29.59  Aligned_cols=76  Identities=8%  Similarity=0.076  Sum_probs=47.6

Q ss_pred             chhHHHHHHhhhcc--chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786           11 DMYTCLIKECTFQK--DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus        11 ~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      +.|..--..+....  |.=+..+-+..+... .+-|++.+..+.+.+|-|.+++..|.++|+.++.   .....|..++.
T Consensus         9 eeF~ary~~~F~~~~iD~we~rrglN~l~~~-DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen    9 EEFDARYEKYFNRPDIDGWELRRGLNNLFGY-DLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHH-TT--HHHHHHHHHHHTTS-SB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHHHhCCccccHHHHHHHHHHHhcc-ccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            33443333344333  333456666666666 7889999999999999999999999999998872   22227877775


Q ss_pred             HH
Q 044786           86 GY   87 (340)
Q Consensus        86 ~~   87 (340)
                      -.
T Consensus        88 El   89 (108)
T PF02284_consen   88 EL   89 (108)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

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

Probab=87.79  E-value=1.6  Score=22.09  Aligned_cols=27  Identities=22%  Similarity=0.582  Sum_probs=17.7

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      |..+...+...|++++|++.|++..+.
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            455666677777777777777777665

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 ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.72  E-value=1.3  Score=23.73  Aligned_cols=28  Identities=7%  Similarity=0.076  Sum_probs=19.9

Q ss_pred             hhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          184 VVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       184 ~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      .+++.+...|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4567777777788888888887777654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.53  E-value=17  Score=31.18  Aligned_cols=247  Identities=12%  Similarity=0.016  Sum_probs=138.6

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHH--HHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLL--FLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECI   97 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~   97 (340)
                      .|+++.|.+-|+-|...    |...  -...|.-.--+.|+.+.|.++-++....   =.-.+...+...+..|+|+.|+
T Consensus       133 eG~~~~Ar~kfeAMl~d----PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         133 EGDYEDARKKFEAMLDD----PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             cCchHHHHHHHHHHhcC----hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHH
Confidence            46777777777776643    1111  1112222223456666666666555422   1225677888889999999999


Q ss_pred             HHHHHHHHhhcCCccccchHH--HHHHHHHHhhhc---cchhhHHHHHHHHHHcCCCCchhH-HHHHHHHHHhhcCHHHH
Q 044786           98 TLFAEMMKRKKGHMLLVFPAW--IIVCVLKACVCT---MNMELGKQVHGLLFKLGSSRNISL-TGSLINFYGKFRCLEDA  171 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~~~~~~~--~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a  171 (340)
                      ++++.-+... -+   .++..  .-..|+.+-+..   .+...|...-.+..+  +.|+..- -..-..++.+.|++.++
T Consensus       209 kLvd~~~~~~-vi---e~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg  282 (531)
T COG3898         209 KLVDAQRAAK-VI---EKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKG  282 (531)
T ss_pred             HHHHHHHHHH-hh---chhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhh
Confidence            9998877663 22   33332  222333222211   234444444333333  3444322 22345688899999999


Q ss_pred             HHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhh-cccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhC
Q 044786          172 DFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGR-ERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIG  249 (340)
Q Consensus       172 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~  249 (340)
                      -.+++.+-+...+.--..+-.+.+.|  +.+.+-+++..+ ..++|+ ...--.+..+-...|++.. +..--+...+  
T Consensus       283 ~~ilE~aWK~ePHP~ia~lY~~ar~g--dta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~-ARa~Aeaa~r--  357 (531)
T COG3898         283 SKILETAWKAEPHPDIALLYVRARSG--DTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSA-ARAKAEAAAR--  357 (531)
T ss_pred             hhHHHHHHhcCCChHHHHHHHHhcCC--CcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHH-HHHHHHHHhh--
Confidence            99999987554433222232334444  445555554433 235665 3444455566666777643 4444443333  


Q ss_pred             CCccHHHHHHHHHHHhc-cCCHHHHHHHHHHhhcCC
Q 044786          250 LESDEYVQCGLVDMYGK-CRLLRDAERVFELIVDKK  284 (340)
Q Consensus       250 ~~~~~~~~~~li~~~~~-~~~~~~A~~~~~~~~~~~  284 (340)
                      ..|....|..|.+.-.. .|+-.++...+.+....|
T Consensus       358 ~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         358 EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence            57888888777776544 489999998887776533

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=87.44  E-value=2.5  Score=28.32  Aligned_cols=57  Identities=19%  Similarity=0.125  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-CcHH-HHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-KNIA-SWNAMLV  294 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~~-~~~~li~  294 (340)
                      ...-+..+....+.|.+.+..+.+.+|-+.+++..|.++|+.++.+ .+.. .|..+++
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            4444555566677888888888888888888888888888888763 2222 5655543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.21  E-value=0.74  Score=23.82  Aligned_cols=24  Identities=8%  Similarity=-0.216  Sum_probs=14.7

Q ss_pred             cchHHHHHHHHHHhhhccchhhHH
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGK  137 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~  137 (340)
                      +-+...|+.+...+...|++++|.
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            345556666666666666666654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.20  E-value=2.3  Score=23.57  Aligned_cols=23  Identities=22%  Similarity=0.159  Sum_probs=11.2

Q ss_pred             HHHHHHcCchHHHHHHHHHHHHc
Q 044786          293 LVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       293 i~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ..+|...|+.+.|.+++++....
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHc
Confidence            34445555555555555554443

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=87.03  E-value=4.1  Score=27.06  Aligned_cols=56  Identities=20%  Similarity=0.148  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAML  293 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li  293 (340)
                      ..+-++.+....+.|++.+..+-+++|-+.+++..|.++|+.++.+  .+...|..++
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~l   83 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHH
Confidence            5555666667778888888888888888888899999998887753  2344555544

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.98  E-value=16  Score=30.04  Aligned_cols=95  Identities=15%  Similarity=0.139  Sum_probs=57.0

Q ss_pred             cchHHHHHHHHHHhhh-cc-chhhHHHHHHHHHH-cCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc-----cCChhh
Q 044786          114 VFPAWIIVCVLKACVC-TM-NMELGKQVHGLLFK-LGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK-----RHNTVV  185 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~  185 (340)
                      -.|..+...+++.... .+ ....-.++.+.+.. .+-.++..+..++++.+++.++|.+-.++++.-.     ..|...
T Consensus       161 i~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rp  240 (292)
T PF13929_consen  161 IFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRP  240 (292)
T ss_pred             eeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCch
Confidence            4455555555555544 11 22222333333332 2345666677778888888888888888777654     237777


Q ss_pred             HHHHHHHHhccCchhHHHHHHHH
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKE  208 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~  208 (340)
                      |..+|+.-...|+..-...+..+
T Consensus       241 W~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  241 WAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhC
Confidence            88888888888886655555443

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

Probab=86.81  E-value=2.6  Score=21.22  Aligned_cols=28  Identities=21%  Similarity=0.337  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          288 SWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       288 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .|..+...|...|++++|++.|++....
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4666777888888888888888877643

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 ....

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=86.79  E-value=13  Score=28.74  Aligned_cols=215  Identities=11%  Similarity=0.032  Sum_probs=139.7

Q ss_pred             ccchhhHHHHHHHHHhhcCCC-CCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-----CCcccHHHHHHHHHcccChhHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIK-PTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-----RDFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a   96 (340)
                      .+....+...+...... ... .....+......+...+++..+...+.....     .....+......+...+.+..+
T Consensus        36 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (291)
T COG0457          36 LGELAEALELLEEALEL-LPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEA  114 (291)
T ss_pred             HhhHHHHHHHHHHHHhc-CccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHH
Confidence            45677777777777765 222 1367777888888888888888888877653     2333566666677777788888


Q ss_pred             HHHHHHHHHhhcCCccccchHHHHHHHHH-HhhhccchhhHHHHHHHHHHcCC--CCchhHHHHHHHHHHhhcCHHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVFPAWIIVCVLK-ACVCTMNMELGKQVHGLLFKLGS--SRNISLTGSLINFYGKFRCLEDADF  173 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~  173 (340)
                      .+.+.......      ..+......... .+...|+++.+...+........  ......+......+...++.+.+..
T Consensus       115 ~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  188 (291)
T COG0457         115 LELLEKALALD------PDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALE  188 (291)
T ss_pred             HHHHHHHHcCC------CCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHH
Confidence            88888887652      111222233333 78888899999999988865332  1234445555555777888999988


Q ss_pred             HHHHcccC----ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          174 VFSQLKRH----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       174 ~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                      .+......    ....+..+-..+...+++++|...+......  .|+ ...+......+...+...+ +.........
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  264 (291)
T COG0457         189 LLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEE-ALEALEKALE  264 (291)
T ss_pred             HHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHH-HHHHHHHHHH
Confidence            88887643    2455777788888888899999998888774  333 2333333334445555545 4444444443

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=86.46  E-value=52  Score=35.50  Aligned_cols=291  Identities=9%  Similarity=-0.016  Sum_probs=153.2

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCC--CCCHHHHHHHHHHHHhcCChhHHHHHHhh-cCcCCcccHHHHHHHHHccc
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNI--KPTLLFLNRLLLMHVSCGQLDTARQLFDE-MPLRDFNSWAVMIVGYVDVA   91 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~g   91 (340)
                      .+..+-.+.+.+.+|...++.-... ..  .....-|-.+...|+.-+++|...-+... ...++   ..--|.-....|
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~-ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g 1463 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRST-EKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASG 1463 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccc-cchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhc
Confidence            3444556778889999888883211 11  11233444455588898999888887763 33332   233444566789


Q ss_pred             ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhH-HHHHHHHHHhhcCHHH
Q 044786           92 DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISL-TGSLINFYGKFRCLED  170 (340)
Q Consensus        92 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~  170 (340)
                      ++..|...|+++.+.+      ++...+++.+++.....|.++.+.-..+-..... .+.... ++.=+.+--+.++++.
T Consensus      1464 ~~~da~~Cye~~~q~~------p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~ 1536 (2382)
T KOG0890|consen 1464 NWADAAACYERLIQKD------PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDL 1536 (2382)
T ss_pred             cHHHHHHHHHHhhcCC------CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhh
Confidence            9999999999999884      3446678888888888888777766544333322 112222 2222333355666665


Q ss_pred             HHHHHH-----------------HcccCChhhH-HHH----------HHHHhccCchhHHHHHHHHHh-----------h
Q 044786          171 ADFVFS-----------------QLKRHNTVVW-TAK----------IVNNCREGHFHQVFNDFKEMG-----------R  211 (340)
Q Consensus       171 a~~~~~-----------------~~~~~~~~~~-~~l----------i~~~~~~~~~~~a~~~~~~m~-----------~  211 (340)
                      .+....                 .+.++|.... +.+          +.++...|-+..+.++.-++.           .
T Consensus      1537 ~e~~l~~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~l 1616 (2382)
T KOG0890|consen 1537 LESYLSDRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELENSIEEL 1616 (2382)
T ss_pred             hhhhhhcccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            555433                 1112222211 111          112222222222322222211           0


Q ss_pred             cccCCChhhH-H-----HHHHhcccCCchhchHHHHHHHHHHhCCCc-----cHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 044786          212 ERIKKNSYTF-S-----SVLKACGGVDDDGNCGRQMHANIVKIGLES-----DEYVQCGLVDMYGKCRLLRDAERVFELI  280 (340)
Q Consensus       212 ~~~~p~~~t~-~-----~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~A~~~~~~~  280 (340)
                      .++.++..+. +     .-+.--....+..+....+.+.+......|     -..+|-...+..-+.|+++.|...+-..
T Consensus      1617 ~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~A 1696 (2382)
T KOG0890|consen 1617 KKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLNA 1696 (2382)
T ss_pred             hccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHhh
Confidence            1122221111 0     111111111111122223333333332232     3456777777777789999998766555


Q ss_pred             hcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          281 VDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       281 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      .+..-+..+--...-+-..|+...|+.++++-.+..
T Consensus      1697 ~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1697 KESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             hhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            443333344445556778999999999999987653

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.23  E-value=1  Score=22.61  Aligned_cols=24  Identities=33%  Similarity=0.685  Sum_probs=17.8

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHh
Q 044786           83 MIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +..++.+.|++++|.+.|+++.+.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHH
Confidence            455666777888888888887776

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=85.91  E-value=11  Score=30.79  Aligned_cols=89  Identities=11%  Similarity=0.150  Sum_probs=63.8

Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      .=|.+++..++|.+++...-+--+...     +....+...-|-.|.+.+.+..+.++-....+..-.-+..-|.++.+.
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pE-----klPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaEL  162 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPE-----KLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAEL  162 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcc-----cCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHH
Confidence            347888889999988877666554321     334455566667788888988888888877776555555568877776


Q ss_pred             HHh-----hcCHHHHHHHH
Q 044786          162 YGK-----FRCLEDADFVF  175 (340)
Q Consensus       162 ~~~-----~~~~~~a~~~~  175 (340)
                      |..     .|.+++|+++.
T Consensus       163 yLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  163 YLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHhccccHHHHHHHH
Confidence            665     48899998876

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PRK11906 transcriptional regulator; Provisional

Probab=85.44  E-value=25  Score=31.00  Aligned_cols=161  Identities=12%  Similarity=0.039  Sum_probs=100.8

Q ss_pred             chh--HHHHHHhhh-----ccchhhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHh---------cCChhHHHHHHhhcC
Q 044786           11 DMY--TCLIKECTF-----QKDSAGAFELLNHIRKRVNIKPTL-LFLNRLLLMHVS---------CGQLDTARQLFDEMP   73 (340)
Q Consensus        11 ~~~--~~li~~~~~-----~~~~~~a~~~~~~m~~~~g~~~~~-~~~~~li~~~~~---------~~~~~~a~~~~~~~~   73 (340)
                      ..|  ...+.+...     .-+.+.|+.+|.+......+.|+- ..|..+-.++..         .....+|.++-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            456  555555543     235677888999998442455553 333333322221         234456666666555


Q ss_pred             c---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-
Q 044786           74 L---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-  149 (340)
Q Consensus        74 ~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-  149 (340)
                      +   .|......+..+....++++.|..+|++....+      +-...+|....-.+.-.|+.++|.+.+++..+..+. 
T Consensus       332 eld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~------Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~  405 (458)
T PRK11906        332 DITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS------TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRR  405 (458)
T ss_pred             hcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC------CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchh
Confidence            3   355566666666678888999999999999884      344556666666677789999999999987665432 


Q ss_pred             CchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          150 RNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      .-.......++.|+.. .++.|.++|-+-
T Consensus       406 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  433 (458)
T PRK11906        406 RKAVVIKECVDMYVPN-PLKNNIKLYYKE  433 (458)
T ss_pred             hHHHHHHHHHHHHcCC-chhhhHHHHhhc
Confidence            2233334445566654 467777766543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.38  E-value=9.2  Score=31.33  Aligned_cols=69  Identities=10%  Similarity=0.027  Sum_probs=50.4

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH-----HcCCCCchhH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF-----KLGSSRNISL  154 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  154 (340)
                      ++...+.|..+|.+.+|.++-+.....+      +.+...+-.++..++..|+--.+.+-++.+.     ..|+..+...
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld------pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsi  355 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD------PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSI  355 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC------hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhH
Confidence            4445577888899999999888888775      6777888888899999888777776665553     3455555443

>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=85.35  E-value=6.4  Score=30.32  Aligned_cols=46  Identities=22%  Similarity=0.177  Sum_probs=23.0

Q ss_pred             HhhhccchhhHHHHHHHHHHc---CCCCchhHHHHHHHHHHhhcCHHHH
Q 044786          126 ACVCTMNMELGKQVHGLLFKL---GSSRNISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      .|....+.+++.+++.+..+.   +-.+|+..+.+|.+.|.+.|+++.|
T Consensus       149 tyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  149 TYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            333344555555555544432   2234555555555555555555554

>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=85.26  E-value=1.6  Score=20.86  Aligned_cols=20  Identities=25%  Similarity=0.248  Sum_probs=10.1

Q ss_pred             HHHHHHHHcCchHHHHHHHH
Q 044786          291 AMLVGYIRNGLYVEATKFLY  310 (340)
Q Consensus       291 ~li~~~~~~~~~~~a~~~~~  310 (340)
                      .+...+...|++++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34445555555555555443

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

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=84.75  E-value=4.5  Score=24.44  Aligned_cols=46  Identities=15%  Similarity=0.355  Sum_probs=27.8

Q ss_pred             CHHHHHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          269 LLRDAERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       269 ~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      .++.+.++++.++. +-|-.-.-.+|.+|...|++++|.++++++..
T Consensus         5 ~~~~~~~~~~~lR~~RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    5 QLEELEELIDSLRAQRHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34455555555543 23444445677788888888888887777654

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=84.32  E-value=16  Score=27.89  Aligned_cols=159  Identities=11%  Similarity=0.098  Sum_probs=88.4

Q ss_pred             CCCCCCCcchhHHHHHHhhhc----cchhhHHHHHHHHHhhcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcC-
Q 044786            3 NLCLPITTDMYTCLIKECTFQ----KDSAGAFELLNHIRKRVNIKPTL----LFLNRLLLMHVSCGQLDTARQLFDEMP-   73 (340)
Q Consensus         3 ~~g~~~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~-   73 (340)
                      +.|+-++++.++.++..+.+.    +..+.+..+-.+.... ++.++-    .....-+..|-..||+.+.=.+|-... 
T Consensus         1 eAGm~l~~Eh~~yiiklL~qlq~s~qEi~~vl~~KsR~~~~-~~~~~~~~~l~~~~~eie~Ckek~DW~klg~ly~nv~~   79 (233)
T PF14669_consen    1 EAGMVLDPEHFNYIIKLLYQLQASKQEIDAVLEIKSRLQAR-QFKKNWLSDLASAVVEIEHCKEKGDWTKLGNLYINVKM   79 (233)
T ss_pred             CCcccCCHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHHHHhhhccHHHHhhHHhhHHh
Confidence            468899999999998887654    4555555555555555 555443    233333445666677666555554433 


Q ss_pred             ------------------------cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh
Q 044786           74 ------------------------LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC  129 (340)
Q Consensus        74 ------------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~  129 (340)
                                              ++..++|.....+-++.-..+++.+.+               -..+-.+++-.|.+
T Consensus        80 gce~~~dlq~~~~~va~~Ltkd~Kdk~~vPFceFAetV~k~~q~~e~dK~~---------------LGRiGiS~m~~Yhk  144 (233)
T PF14669_consen   80 GCEKFADLQRFCACVAEALTKDSKDKPGVPFCEFAETVCKDPQNDEVDKTL---------------LGRIGISLMYSYHK  144 (233)
T ss_pred             hcCCHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHhcCCccchhhhhh---------------hhHHHHHHHHHHHH
Confidence                                    222233444444444433333322221               12223356677777


Q ss_pred             ccchhhHHHHHHHHHHcCCC--------------CchhHHHHHHHHHHhhcCHHHHHHHHHH
Q 044786          130 TMNMELGKQVHGLLFKLGSS--------------RNISLTGSLINFYGKFRCLEDADFVFSQ  177 (340)
Q Consensus       130 ~~~~~~a~~~~~~~~~~~~~--------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (340)
                      ..++.++.++++.+.+..+.              +--...|...+.+.++|.++.|..++++
T Consensus       145 ~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLre  206 (233)
T PF14669_consen  145 TLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLRE  206 (233)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHhc
Confidence            88888888888877665332              1222345555556666666666666553

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.13  E-value=10  Score=25.44  Aligned_cols=87  Identities=10%  Similarity=0.042  Sum_probs=62.9

Q ss_pred             cchhhHHHHHHHHHhhcCCCCCHHHHHHHH--HHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHH
Q 044786           24 KDSAGAFELLNHIRKRVNIKPTLLFLNRLL--LMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFA  101 (340)
Q Consensus        24 ~~~~~a~~~~~~m~~~~g~~~~~~~~~~li--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  101 (340)
                      ...++|..+-+++... +   +..-...||  ..+...|++++|..+.+.+..||..+|-+|-.  .+.|..+.+..-+.
T Consensus        19 HcHqEA~tIAdwL~~~-~---~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~   92 (115)
T TIGR02508        19 HCHQEANTIADWLHLK-G---ESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLN   92 (115)
T ss_pred             hHHHHHHHHHHHHhcC-C---chHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHH
Confidence            4678888888888766 3   223333444  56678899999999999999999999887754  46677777777777


Q ss_pred             HHHHhhcCCccccchHHHHHH
Q 044786          102 EMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus       102 ~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      +|-..|      .|....|..
T Consensus        93 rla~sg------~p~lq~Faa  107 (115)
T TIGR02508        93 RLAASG------DPRLQTFVA  107 (115)
T ss_pred             HHHhCC------CHHHHHHHH
Confidence            787775      455555543

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=83.76  E-value=26  Score=29.83  Aligned_cols=129  Identities=9%  Similarity=-0.008  Sum_probs=83.8

Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHH----HHcCCCCchhHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLL----FKLGSSRNISLTG  156 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~  156 (340)
                      -++-.++.-.+.++++++-|+...+.....+.....-.++..|...+.+..|++++.-+....    ...++..-..-|.
T Consensus       126 l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr  205 (518)
T KOG1941|consen  126 LSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYR  205 (518)
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHH
Confidence            345667777788999999998877653222222334458889999999999999988665433    2334332112232


Q ss_pred             -----HHHHHHHhhcCHHHHHHHHHHcccC-----Chh----hHHHHHHHHhccCchhHHHHHHHHH
Q 044786          157 -----SLINFYGKFRCLEDADFVFSQLKRH-----NTV----VWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       157 -----~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~----~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                           -+.-++...|++..|.+.-++..+-     |-.    ..-.+...|-..|+.+.|+.-|++.
T Consensus       206 ~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  206 AMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence                 2344667778888887777765432     322    3455677888889988888777664

>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=83.46  E-value=4.2  Score=20.50  Aligned_cols=27  Identities=19%  Similarity=0.165  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          288 SWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       288 ~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            455666677777777777777776543

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=83.08  E-value=53  Score=32.78  Aligned_cols=27  Identities=15%  Similarity=0.396  Sum_probs=18.8

Q ss_pred             cHH-HHHHHHHccc--ChhHHHHHHHHHHH
Q 044786           79 SWA-VMIVGYVDVA--DYQECITLFAEMMK  105 (340)
Q Consensus        79 ~~~-~li~~~~~~g--~~~~a~~~~~~m~~  105 (340)
                      .|+ .+|.+|.+.+  ..+.|++...+...
T Consensus       791 ~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  791 KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            444 5778888887  66777777766664

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=82.17  E-value=4.9  Score=30.95  Aligned_cols=33  Identities=15%  Similarity=0.097  Sum_probs=25.1

Q ss_pred             cCCcccHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           74 LRDFNSWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        74 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      .|++.+|..++..+...|+.++|.++..++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            467777777777788888888887777777766

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=81.83  E-value=18  Score=26.46  Aligned_cols=66  Identities=15%  Similarity=0.231  Sum_probs=47.3

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCH---HHHHHHHHHHHhcCChhHHHHHHhhcCcCCcc-cHHHHHHHHHcc
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTL---LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFN-SWAVMIVGYVDV   90 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~li~~~~~~   90 (340)
                      -....+.+++..+++-|...   .|+.   .++..  -.+...|++++|+++|+++.+.... .|..-+.++|-.
T Consensus        20 aL~~~d~~D~e~lLdALrvL---rP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        20 ALRSADPYDAQAMLDALRVL---RPNLKELDMFDG--WLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLN   89 (153)
T ss_pred             HHhcCCHHHHHHHHHHHHHh---CCCccccchhHH--HHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHH
Confidence            34578999999999999854   5554   34333  3467889999999999999966533 666666555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=81.70  E-value=12  Score=33.00  Aligned_cols=123  Identities=11%  Similarity=0.069  Sum_probs=78.2

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccCh
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADY   93 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~   93 (340)
                      |.--...|+...|-+-+....+...-.|+.....  -..+...|+++.+.+.+....   .....+..++++...+.|++
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLIQLR--SVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHH--HHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhH
Confidence            3344456777666554444443313344444333  334566789999988877655   34556788899999999999


Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      ++|..+-..|+..  .+    -+..+........-+.|-++++...++++....
T Consensus       374 ~~a~s~a~~~l~~--ei----e~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        374 REALSTAEMMLSN--EI----EDEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHHHhcc--cc----CChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            9999999888876  22    333333444444455667777877777765543

>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=81.40  E-value=4  Score=20.58  Aligned_cols=28  Identities=18%  Similarity=0.386  Sum_probs=17.9

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +|..+...|...|++++|.+.|++..+.
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3455556666667777777777666655

...

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=81.36  E-value=10  Score=29.65  Aligned_cols=52  Identities=8%  Similarity=-0.091  Sum_probs=24.1

Q ss_pred             HHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      ++.+.+.+.+.+++...++-++..+. +..+-..++..||-.|+|++|..-++
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~   59 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLN   59 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHH
Confidence            33344444555555554444444322 33334445555555555555544433

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=81.20  E-value=12  Score=24.30  Aligned_cols=67  Identities=10%  Similarity=0.075  Sum_probs=48.0

Q ss_pred             hHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHH
Q 044786           28 GAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECI   97 (340)
Q Consensus        28 ~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~   97 (340)
                      .+.++++.+.+. |+- +..-...+-.+-...|+.+.|.+++..+. +.+..|..++.++-..|.-+-|.
T Consensus        20 ~~~~v~d~ll~~-~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~aF~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          20 KTRDVCDKCLEQ-GLL-TEEDRNRIEAATENHGNESGARELLKRIV-QKEGWFSKFLQALRETEHHELAR   86 (88)
T ss_pred             hHHHHHHHHHhc-CCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cCCcHHHHHHHHHHHcCchhhhh
Confidence            356778888887 643 33344444433346688999999999999 88888999999988887766554

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=80.51  E-value=38  Score=29.45  Aligned_cols=244  Identities=10%  Similarity=-0.008  Sum_probs=143.6

Q ss_pred             CCHHHHHHHH-HHHHhcCChhHHHHHHhhcCcCCcc-cHHHHHHHHH--cccChhHHHHHHHHHHHhhcCCccccchHHH
Q 044786           44 PTLLFLNRLL-LMHVSCGQLDTARQLFDEMPLRDFN-SWAVMIVGYV--DVADYQECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        44 ~~~~~~~~li-~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~li~~~~--~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      |...+|..+- .++.-.|+.++|.+.--.+.+-|.. .+...+++.+  -.++.+.+...|++-+..       .|+...
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l-------dpdh~~  238 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDATNAEALYVRGLCLYYNDNADKAINHFQQALRL-------DPDHQK  238 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccchhHHHHhcccccccccchHHHHHHHhhhhcc-------Chhhhh
Confidence            3334444333 3455668888888877666655444 4555555433  357788899999888876       344332


Q ss_pred             ---HHHH----------HHHhhhccchhhHHHHHHHHHHcC---CCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCCh
Q 044786          120 ---IVCV----------LKACVCTMNMELGKQVHGLLFKLG---SSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNT  183 (340)
Q Consensus       120 ---~~~l----------l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  183 (340)
                         -...          .+-..+.|++..|.+.|.+.+...   ..|+...|.....+..+.|+..+|..--+...+-|.
T Consensus       239 sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~  318 (486)
T KOG0550|consen  239 SKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDS  318 (486)
T ss_pred             HHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCH
Confidence               2222          223456788999999999888664   355666777778888899999999998888776654


Q ss_pred             hh---HHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHH
Q 044786          184 VV---WTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCG  259 (340)
Q Consensus       184 ~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (340)
                      .-   |-.-..++.-.+.|++|.+-|++..+..-.+ ...|+.....++-+..+.+  ...++.........|....|.-
T Consensus       319 syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkkSkRkd--~ykilGi~~~as~~eikkayrk  396 (486)
T KOG0550|consen  319 SYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALKKSKRKD--WYKILGISRNASDDEIKKAYRK  396 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhhhhh--HHHHhhhhhhcccchhhhHHHH
Confidence            32   2222234445678999998888876643222 2344544444554444421  3334444443334444444433


Q ss_pred             HHHHHh---ccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHH
Q 044786          260 LVDMYG---KCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKF  308 (340)
Q Consensus       260 li~~~~---~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  308 (340)
                      +.-++.   ..|.-.+|+..|.+.            ..+|...+++.+..+.
T Consensus       397 ~AL~~Hpd~~agsq~eaE~kFkev------------geAy~il~d~~kr~r~  436 (486)
T KOG0550|consen  397 LALVHHPDKNAGSQKEAEAKFKEV------------GEAYTILSDPMKRVRF  436 (486)
T ss_pred             HHHHhCCCcCcchhHHHHHHHHHH------------HHHHHHhcCHHHHhhc
Confidence            222221   122334555555544            4566666777666554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	340
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 55.6 bits (133), Expect = 1e-08
 Identities = 57/388 (14%), Positives = 115/388 (29%), Gaps = 131/388 (33%)

Query: 1   MDNLC--LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNR-----LL 53
            +  C  L +TT             +       L       +++    + L       LL
Sbjct: 262 FNLSCKIL-LTT-------------RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

Query: 54  LMHVSCGQLDTARQLFDEMPL---------RDFNS----WAVMIVGYVDVADYQECITLF 100
           L ++ C   D  R++    P          RD  +    W      +V+       I   
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK-----HVNCDKLTTIIESS 362

Query: 101 AEMMK----RKKGHMLLVFP--AWI---IVCVL-----KACVCTMNMELGKQ-------- 138
             +++    RK    L VFP  A I   ++ ++     K+ V  +  +L K         
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422

Query: 139 -----VHGLLFKLGSSRN--ISLTGSLINFYGKFRCLEDADFV--------FSQLKRHNT 183
                +  +  +L        +L  S+++ Y   +  +  D +        +S +  H  
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH-- 480

Query: 184 VVWTAKIVNNCREGH----FHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGR 239
                  + N         F  VF DF+ + + +I+ +S        A G + +      
Sbjct: 481 -------LKNIEHPERMTLFRMVFLDFRFLEQ-KIRHDSTA----WNASGSILNT----- 523

Query: 240 QMHANIVKIGLESDEYVQCGLVDM--YGKCRLLRDAERVFELIVD--KKNIASWNAMLVG 295
                               L  +  Y     + D +  +E +V+     +      L+ 
Sbjct: 524 --------------------LQQLKFYKP--YICDNDPKYERLVNAILDFLPKIEENLIC 561

Query: 296 Y-----IRNGLYVEATKFLYLMKASGIQ 318
                 +R  L  E  + ++      +Q
Sbjct: 562 SKYTDLLRIALMAE-DEAIFEEAHKQVQ 588

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.6 bits (94), Expect = 6e-04
 Identities = 45/315 (14%), Positives = 91/315 (28%), Gaps = 78/315 (24%)

Query: 65  ARQLFDEMPLRDFNSWAV-MIVGYVDVADYQECITLFAEMMKRKKGHMLL----VFPAWI 119
             +LF    L       V   V  V   +Y+  ++      ++      +        + 
Sbjct: 64  TLRLFWT--LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121

Query: 120 IVCVLKACVCTMNMELGKQVHGL---LFKLGSSRNISL---TGSLINFYGKFRCL----- 168
              V        N+   +    L   L +L  ++N+ +    GS     GK   +     
Sbjct: 122 DNQVFA----KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS-----GK-TWVALDVC 171

Query: 169 EDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC 228
                   Q K    + W    + NC                 E + +        +   
Sbjct: 172 LSYKV---QCKMDFKIFWLN--LKNCNS--------------PETVLEMLQKLLYQIDPN 212

Query: 229 GGVDDDGNCGRQMHANIVKIGL----ESDEYVQCGLV--DMY---------GKCRLL--- 270
                D +   ++  + ++  L    +S  Y  C LV  ++            C++L   
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272

Query: 271 RDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQE-----SLIN 325
           R  +     + D  + A+   + + +    L  +  K L L+K    + Q+        N
Sbjct: 273 RFKQ-----VTDFLSAATTTHISLDHHSMTLTPDEVKSL-LLKYLDCRPQDLPREVLTTN 326

Query: 326 DLRIACSSISASKIN 340
                 S I+ S  +
Sbjct: 327 PR--RLSIIAESIRD 339

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 41.0 bits (94), Expect = 5e-04
 Identities = 27/226 (11%), Positives = 70/226 (30%), Gaps = 10/226 (4%)

Query: 123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH- 181
           +L+     +++++ +   G   +   S       +          L  A  +        
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 182 ------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDG 235
                    ++ A ++   R+G F ++      +    +  +  ++++ L+  G  D D 
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVF---ELIVDKKNIASWNAM 292
               +    + + GL+        L+    +  +L+   +V     L        + + +
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 293 LVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISASK 338
           L         V   K    +K      ++ L  +L      +S  K
Sbjct: 278 LRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEK 323

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	340
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.85
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.82
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.79
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.79
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.7
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.64
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.64
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.64
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.64
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.61
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.61
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.61
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.61
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.58
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.58
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.57
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.57
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.56
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.56
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.56
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.54
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.53
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.53
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.53
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.52
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.47
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.47
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.42
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.42
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.41
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.41
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.36
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.35
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.33
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.32
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.32
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.3
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.3
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.25
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.23
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.23
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.2
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.19
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.18
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.16
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.15
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.12
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.07
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.07
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.06
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.04
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.04
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.04
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.03
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.03
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.02
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.99
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.99
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.95
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.94
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.94
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.92
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.92
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.91
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.91
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.88
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.86
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.85
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.85
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.85
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.83
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.83
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.79
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.79
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.71
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.71
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.7
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.69
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.69
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.67
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.65
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.65
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.65
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.63
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.63
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.62
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.6
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.6
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.6
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.6
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.59
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.57
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.55
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.54
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.53
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.5
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.49
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.47
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.46
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.45
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.44
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.44
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.44
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.44
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.4
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.39
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.37
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.37
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.36
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.36
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.35
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.35
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.34
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.34
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.34
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.34
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.34
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.34
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.33
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.33
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.3
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.29
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.28
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.27
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.25
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.25
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.24
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.16
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.14
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.14
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.13
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.13
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.1
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.09
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.06
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.03
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.01
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.0
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.0
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.99
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.99
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.98
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.92
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.9
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.89
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.88
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.82
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.8
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.77
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.71
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.64
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.6
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.6
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.59
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.54
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.5
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.49
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.46
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.41
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.4
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.39
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.31
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.26
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.2
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.06
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.03
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.93
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.91
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.8
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.78
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.65
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.56
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.48
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.32
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.11
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.85
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.78
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.6
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.34
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.29
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.28
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.26
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.95
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.75
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.54
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.3
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.08
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.78
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.24
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.24
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.11
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.92
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.34
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.33
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.92
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.64
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.71
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.61
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.48
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.28
2p58_C	116	Putative type III secretion protein YSCG; type III	89.13
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.49
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	87.65
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.17
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	87.13
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	86.18
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	86.05
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	85.97
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	84.3
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	81.62
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	81.29

>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=100.00  E-value=2.8e-35  Score=258.16  Aligned_cols=215  Identities=13%  Similarity=0.031  Sum_probs=179.9

Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHH
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADF  173 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  173 (340)
                      ..+..+.+++.+.+  .  ...+..+++.+|.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.+...++  
T Consensus         7 s~~e~L~~~~~~k~--~--~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~--   80 (501)
T 4g26_A            7 SPSENLSRKAKKKA--I--QQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES--   80 (501)
T ss_dssp             ---------------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS--
T ss_pred             chHHHHHHHHHHhc--c--cCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh--
Confidence            34555666666663  2  02344568889999999999999999999999999999999999999999887764321  


Q ss_pred             HHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCcc
Q 044786          174 VFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESD  253 (340)
Q Consensus       174 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (340)
                                          ...+..++|.++|++|...|+.||..||+++|.+|++.|++++ |..+++.|.+.|+.||
T Consensus        81 --------------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~-A~~l~~~M~~~g~~Pd  139 (501)
T 4g26_A           81 --------------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEM-AFDMVKQMKAFGIQPR  139 (501)
T ss_dssp             --------------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHH-HHHHHHHHHHTTCCCC
T ss_pred             --------------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHcCCCCc
Confidence                                3455678899999999999999999999999999999999977 9999999999999999


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhhc---CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHH
Q 044786          254 EYVQCGLVDMYGKCRLLRDAERVFELIVD---KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIA  330 (340)
Q Consensus       254 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a  330 (340)
                      ..+|++||.+|++.|++++|.++|++|..   .||..+|++||.+|++.|++++|.+++++|++.|+.|+..||+.++..
T Consensus       140 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~  219 (501)
T 4g26_A          140 LRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEW  219 (501)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHH
T ss_pred             cceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHH
Confidence            99999999999999999999999999987   489999999999999999999999999999999999999999999999


Q ss_pred             hhhcC
Q 044786          331 CSSIS  335 (340)
Q Consensus       331 ~~~~g  335 (340)
                      |+..+
T Consensus       220 F~s~~  224 (501)
T 4g26_A          220 FKSEV  224 (501)
T ss_dssp             HHSHH
T ss_pred             HhcCc
Confidence            88754

>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=100.00  E-value=9.9e-34  Score=248.39  Aligned_cols=201  Identities=10%  Similarity=0.089  Sum_probs=170.7

Q ss_pred             CCCCCCCCcc-hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccH
Q 044786            2 DNLCLPITTD-MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSW   80 (340)
Q Consensus         2 ~~~g~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   80 (340)
                      +++++.++++ .++.+|++|++.|++++|+++|+.|.+. |++||..+||.||.+|++.+...++               
T Consensus        17 ~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~-Gv~pd~~tyn~Li~~c~~~~~~~~~---------------   80 (501)
T 4g26_A           17 KKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRN-GVQLSQYHYNVLLYVCSLAEAATES---------------   80 (501)
T ss_dssp             -------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH-TCCCCHHHHHHHHHHHTTCCCCSSS---------------
T ss_pred             HHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHhHHHHHHHHHHhCCchhhh---------------
Confidence            4556666655 4788888888889999999999999888 8889999999888888887764432               


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLIN  160 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  160 (340)
                             .+.+..++|.++|++|...  |+   .||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.
T Consensus        81 -------~~~~~l~~A~~lf~~M~~~--G~---~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~  148 (501)
T 4g26_A           81 -------SPNPGLSRGFDIFKQMIVD--KV---VPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALF  148 (501)
T ss_dssp             -------SCCHHHHHHHHHHHHHHHT--TC---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             -------hhcchHHHHHHHHHHHHHh--CC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHH
Confidence                   2345678899999999988  55   89999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCHHHHHHHHHHcc----cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhccc
Q 044786          161 FYGKFRCLEDADFVFSQLK----RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG  230 (340)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  230 (340)
                      +|++.|++++|.++|++|.    .||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+.
T Consensus       149 ~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          149 GFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            9999999999999999996    468899999999999999999999999999999999999999999988865

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.2e-30  Score=231.02  Aligned_cols=323  Identities=8%  Similarity=-0.048  Sum_probs=235.8

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCC-----------
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRD-----------   76 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----------   76 (340)
                      |+..++..++..|.+.|++++|.++|+.+..   .+++..+++.++.+|.+.|++++|.++|+++...+           
T Consensus       115 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  191 (597)
T 2xpi_A          115 GNPNDAFWLAQVYCCTGDYARAKCLLTKEDL---YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLM  191 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCG---GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------C
T ss_pred             CCchHHHHHHHHHHHcCcHHHHHHHHHHHhc---cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccc
Confidence            4455555666666666666666666665542   35677778888888888888888888887544332           


Q ss_pred             --------cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCC--------------------------------------
Q 044786           77 --------FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGH--------------------------------------  110 (340)
Q Consensus        77 --------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--------------------------------------  110 (340)
                              ..+|+.++.+|.+.|++++|.++|++|.+.+...                                      
T Consensus       192 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  271 (597)
T 2xpi_A          192 QDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFL  271 (597)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHH
T ss_pred             cccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHH
Confidence                    5678888888888888888888888887663110                                      


Q ss_pred             ---------------------------ccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786          111 ---------------------------MLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus       111 ---------------------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                                                 ...+++..++..++..+.+.|++++|.++|+.+.+.+.. +..++..++.+|.
T Consensus       272 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~  350 (597)
T 2xpi_A          272 RSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLH  350 (597)
T ss_dssp             HHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHH
Confidence                                       001245556666666666666666666666666655533 5556666666666


Q ss_pred             hhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHH
Q 044786          164 KFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQ  240 (340)
Q Consensus       164 ~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~  240 (340)
                      +.|++++|.++++++.+   .+..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|..++.+|.+.|++++ +..
T Consensus       351 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~-A~~  428 (597)
T 2xpi_A          351 ESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQ-AIS  428 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH-HHH
T ss_pred             HhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH-HHH
Confidence            66666666666666542   256678888888888888888888888887642 2346688888888888888876 777


Q ss_pred             HHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc---
Q 044786          241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS---  315 (340)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---  315 (340)
                      +++.+.+.+ +.+..+|+.++.+|.+.|++++|.++|+++..  +.+..+|+.++..|.+.|++++|+++|+++.+.   
T Consensus       429 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  507 (597)
T 2xpi_A          429 AYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKK  507 (597)
T ss_dssp             HHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhc
Confidence            777776643 44778888899999999999999999988875  357888999999999999999999999998777   


Q ss_pred             -CCccc--hhHHHHHHHHhhhcCcc
Q 044786          316 -GIQIQ--ESLINDLRIACSSISAS  337 (340)
Q Consensus       316 -g~~~~--~~t~~~ll~a~~~~g~~  337 (340)
                       +..|+  ..++..+..+|...|..
T Consensus       508 ~~~~p~~~~~~~~~l~~~~~~~g~~  532 (597)
T 2xpi_A          508 TQSNEKPWAATWANLGHAYRKLKMY  532 (597)
T ss_dssp             SCCCSGGGHHHHHHHHHHHHHTTCH
T ss_pred             cccchhhHHHHHHHHHHHHHHhcCH
Confidence             77787  67899999999888864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.7e-30  Score=234.16  Aligned_cols=321  Identities=9%  Similarity=-0.019  Sum_probs=250.9

Q ss_pred             CCCCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHH---------------------------------
Q 044786            4 LCLPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLN---------------------------------   50 (340)
Q Consensus         4 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~---------------------------------   50 (340)
                      .|.+++..+|+.++..|.+.|++++|.++|+.|.+. + +.+...+.                                 
T Consensus       194 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  271 (597)
T 2xpi_A          194 GGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMV-D-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFL  271 (597)
T ss_dssp             SSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHH
T ss_pred             cccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHH
Confidence            355667899999999999999999999999999877 3 22333322                                 


Q ss_pred             -----HHHHHHHhcCChhHHHHHHhhcCc--CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHH
Q 044786           51 -----RLLLMHVSCGQLDTARQLFDEMPL--RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV  123 (340)
Q Consensus        51 -----~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l  123 (340)
                           .++..|.+.|++++|.++|+++.+  ++..+|+.++.+|.+.|++++|.++|+++.+.+      +.+..++..+
T Consensus       272 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~l  345 (597)
T 2xpi_A          272 RSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID------PYNLDVYPLH  345 (597)
T ss_dssp             HHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCCTTHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC------cccHHHHHHH
Confidence                 235556677888899999988876  677888889999999999999999999888774      3466678888


Q ss_pred             HHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchh
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~  200 (340)
                      +.++.+.|++++|.++++.+.+.. +.+..+++.++..|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|+++
T Consensus       346 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  424 (597)
T 2xpi_A          346 LASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHD  424 (597)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            888888888888888888887654 33677888888888888888888888887753   35678888888888888888


Q ss_pred             HHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 044786          201 QVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELI  280 (340)
Q Consensus       201 ~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  280 (340)
                      +|+++|+++.+.+ +.+..+|..+..+|.+.|++++ +..+++.+.+.. +.+..+|+.++..|.+.|++++|.++|+++
T Consensus       425 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  501 (597)
T 2xpi_A          425 QAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILL-ANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNA  501 (597)
T ss_dssp             HHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHH-HHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHH-HHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            8888888887653 3466778888888888888866 777777776653 346778888888888888888888888877


Q ss_pred             hc-------CCc--HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCcc
Q 044786          281 VD-------KKN--IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLRIACSSISAS  337 (340)
Q Consensus       281 ~~-------~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~  337 (340)
                      ..       .|+  ..+|..++.+|.+.|++++|.++|+++.+.+ +.+..+|..+..+|...|..
T Consensus       502 ~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~  566 (597)
T 2xpi_A          502 LLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIP  566 (597)
T ss_dssp             HHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCH
Confidence            54       344  6788888888888888888888888887765 34677888888888887764

>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=99.95  E-value=7.3e-24  Score=181.87  Aligned_cols=295  Identities=10%  Similarity=0.013  Sum_probs=192.4

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--cC-CcccHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--LR-DFNSWAVMI   84 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~-~~~~~~~li   84 (340)
                      .+..+|..+...+.+.|++++|.+.|+.+.+.  -+.+..+|..+..++.+.|++++|.+.|+++.  .| +...+..+.
T Consensus        65 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  142 (388)
T 1w3b_A           65 LLAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLG  142 (388)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHH
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            34555666666666666666666666666654  23344556666666666666666666666655  22 223455555


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      ..+...|++++|.+.|+++.+..      +.+..+|..+...+...|++++|...|+++.+.+.. +...+..+...+..
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~  215 (388)
T 1w3b_A          143 NLLKALGRLEEAKACYLKAIETQ------PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKE  215 (388)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHT
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHH
Confidence            66666666666666666666652      334556666666666677777777777666665432 45566666666677


Q ss_pred             hcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhchHHH
Q 044786          165 FRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNCGRQ  240 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~~~~  240 (340)
                      .|++++|...|++..+  | +..++..+...|...|++++|...|+++.+.  .| +..++..+...+.+.|++++ +..
T Consensus       216 ~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~-A~~  292 (388)
T 1w3b_A          216 ARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAE-AED  292 (388)
T ss_dssp             TTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHH-HHH
T ss_pred             cCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHH-HHH
Confidence            7777777776666542  2 4566777777777777777777777777764  23 34567777777777777766 666


Q ss_pred             HHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .++.+.+. .+.+..++..+...+.+.|++++|.+.++++..  +.+..+|..+...|.+.|++++|.+.|+++.+.
T Consensus       293 ~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          293 CYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66666554 245667777777777777888888877777765  235667777777777888888888887777653

>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=99.94  E-value=1.2e-23  Score=180.58  Aligned_cols=315  Identities=9%  Similarity=-0.068  Sum_probs=257.5

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--cC-CcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--LR-DFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~-~~~~~~~li~   85 (340)
                      +...+..+...+.+.|++++|...++...+.  .+.+..+|..+...+.+.|++++|.+.|+++.  .| +..+|..+..
T Consensus        32 ~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  109 (388)
T 1w3b_A           32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAA  109 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            3445566677778889999999999888876  46678889999999999999999999999876  33 4446888999


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      ++...|++++|.+.|+++.+..      +.+...+..+...+...|++++|.+.|+.+.+.... +..+|..+...|.+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~  182 (388)
T 1w3b_A          110 ALVAAGDMEGAVQAYVSALQYN------PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQ  182 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHC------TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            9999999999999999998873      334556777888888889999999999998887533 567888899999999


Q ss_pred             cCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHH
Q 044786          166 RCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQM  241 (340)
Q Consensus       166 ~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~  241 (340)
                      |++++|...|+++.+  | +...|..+...+...|++++|...|++....  .|+ ..++..+...+...|++++ +...
T Consensus       183 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~-A~~~  259 (388)
T 1w3b_A          183 GEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDL-AIDT  259 (388)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH-HHHH
T ss_pred             CCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHHHHHcCCHHH-HHHH
Confidence            999999999998763  2 5567888888999999999999999988774  454 6778888899999999977 7777


Q ss_pred             HHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCcc
Q 044786          242 HANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQI  319 (340)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~  319 (340)
                      ++.+.+.. +.++.+|..+...|.+.|++++|.+.|+++..  +++..+|+.+...+.+.|++++|.+.++++.+.. +.
T Consensus       260 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~  337 (388)
T 1w3b_A          260 YRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PE  337 (388)
T ss_dssp             HHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TT
T ss_pred             HHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CC
Confidence            77777643 33577889999999999999999999998876  4578899999999999999999999999997642 33


Q ss_pred             chhHHHHHHHHhhhcCcc
Q 044786          320 QESLINDLRIACSSISAS  337 (340)
Q Consensus       320 ~~~t~~~ll~a~~~~g~~  337 (340)
                      +..++..+...+.+.|..
T Consensus       338 ~~~~~~~l~~~~~~~g~~  355 (388)
T 1w3b_A          338 FAAAHSNLASVLQQQGKL  355 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCC
T ss_pred             cHHHHHHHHHHHHHcCCH
Confidence            467888888888888764

>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=99.93  E-value=2e-22  Score=176.14  Aligned_cols=302  Identities=10%  Similarity=-0.006  Sum_probs=252.9

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVM   83 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l   83 (340)
                      |.++..+..+...+.+.|++++|.++|+.+...  .+.+..++..+..++.+.|++++|.+.|+++.+   .+..++..+
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l  100 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQR  100 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHH
Confidence            345667888999999999999999999999976  456789999999999999999999999999873   355678999


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchH---HHHHHH------------HHHhhhccchhhHHHHHHHHHHcCC
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPA---WIIVCV------------LKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      ...|.+.|++++|.+.|+++.+..      +.+.   ..+..+            ...+...|++++|...++.+.+...
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  174 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN------PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV  174 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC------CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999998773      3333   555555            4448889999999999999998764


Q ss_pred             CCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhh-HHHH
Q 044786          149 SRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYT-FSSV  224 (340)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~l  224 (340)
                      . +..++..+..+|.+.|++++|.+.|+++.+   .+..+|..+...|...|++++|...|+++.+.  .|+... +..+
T Consensus       175 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~  251 (450)
T 2y4t_A          175 W-DAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHY  251 (450)
T ss_dssp             T-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             C-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHH
Confidence            3 778899999999999999999999999863   47789999999999999999999999999864  455433 3333


Q ss_pred             ------------HHhcccCCchhchHHHHHHHHHHhCCCcc-----HHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCc
Q 044786          225 ------------LKACGGVDDDGNCGRQMHANIVKIGLESD-----EYVQCGLVDMYGKCRLLRDAERVFELIVD--KKN  285 (340)
Q Consensus       225 ------------l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~  285 (340)
                                  ...+...|++++ +...++.+....  |+     ...+..+...+.+.|++++|.+.++++..  +.+
T Consensus       252 ~~~~~~~~~~~~~~~~~~~g~~~~-A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~  328 (450)
T 2y4t_A          252 KQVKKLNKLIESAEELIRDGRYTD-ATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDN  328 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHH-HHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence                        678889999977 777777776643  33     45788999999999999999999999865  347


Q ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHH
Q 044786          286 IASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLI  324 (340)
Q Consensus       286 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~  324 (340)
                      ...|..+..+|...|++++|...|++..+.  .|+....
T Consensus       329 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~  365 (450)
T 2y4t_A          329 VNALKDRAEAYLIEEMYDEAIQDYETAQEH--NENDQQI  365 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcchHHH
Confidence            889999999999999999999999999864  5554433

>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=99.90  E-value=3.4e-20  Score=162.06  Aligned_cols=318  Identities=10%  Similarity=0.047  Sum_probs=256.6

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCc------ccH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDF------NSW   80 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~------~~~   80 (340)
                      |.+...|..+...+...|++++|.+.|+.+.+.  -+.+..++..+..+|.+.|++++|.+.|+++...++      ..+
T Consensus        57 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  134 (450)
T 2y4t_A           57 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQL--KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQ  134 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHH
Confidence            446778899999999999999999999999987  345688999999999999999999999999875433      455


Q ss_pred             HHH------------HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           81 AVM------------IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        81 ~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      ..+            ...+...|++++|++.|+++.+..      +.+..++..+...+.+.|++++|.+.++.+.+...
T Consensus       135 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  208 (450)
T 2y4t_A          135 SQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC------VWDAELRELRAECFIKEGEPRKAISDLKAASKLKN  208 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            555            344889999999999999999884      55778899999999999999999999999988753


Q ss_pred             CCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHH------------HHHHhccCchhHHHHHHHHHhhcc
Q 044786          149 SRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAK------------IVNNCREGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~  213 (340)
                       .+..++..+...|...|++++|...|+++.+  | +...+..+            ...+...|++++|...|+++.+. 
T Consensus       209 -~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-  286 (450)
T 2y4t_A          209 -DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT-  286 (450)
T ss_dssp             -SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-
T ss_pred             -CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-
Confidence             3678999999999999999999999999863  2 34444444            78999999999999999999874 


Q ss_pred             cCCC-----hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cH
Q 044786          214 IKKN-----SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NI  286 (340)
Q Consensus       214 ~~p~-----~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~  286 (340)
                       .|+     ...+..+...+.+.|++++ +...++.+.+.. +.+..+|..+..+|...|++++|.+.|+++.. .| +.
T Consensus       287 -~p~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~  363 (450)
T 2y4t_A          287 -EPSIAEYTVRSKERICHCFSKDEKPVE-AIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQ  363 (450)
T ss_dssp             -CCSSHHHHHHHHHHHHHHHHTTTCHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCH
T ss_pred             -CCcchHHHHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchH
Confidence             455     3467888889999999977 777777766653 44789999999999999999999999999976 34 55


Q ss_pred             HHHHHHHHH------------HHHcC-----chHHHHHHHHHHHHcCCccc-----------hhHHHHHHHHhhhcCccc
Q 044786          287 ASWNAMLVG------------YIRNG-----LYVEATKFLYLMKASGIQIQ-----------ESLINDLRIACSSISASK  338 (340)
Q Consensus       287 ~~~~~li~~------------~~~~~-----~~~~a~~~~~~m~~~g~~~~-----------~~t~~~ll~a~~~~g~~~  338 (340)
                      ..+..+..+            |...|     +.+++.+.|+++... ..||           ...|..+-.++..+|++.
T Consensus       364 ~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~-~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~  442 (450)
T 2y4t_A          364 QIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQ-WHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPE  442 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHH-SCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGG
T ss_pred             HHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHH-hCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHH
Confidence            666666533            33334     566778888874322 1222           348888999999988865

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=4.4e-19  Score=149.94  Aligned_cols=309  Identities=9%  Similarity=-0.010  Sum_probs=250.2

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~   85 (340)
                      ++..+..+...+...|++++|.+.|+.+.+.  .+.+...+..+...+...|++++|.+.|+...+  | +...|..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDG--DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHH
Confidence            4567788889999999999999999999987  455788999999999999999999999998873  3 5567889999


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCcccc---chHHHHHHH------------HHHhhhccchhhHHHHHHHHHHcCCCC
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLV---FPAWIIVCV------------LKACVCTMNMELGKQVHGLLFKLGSSR  150 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~---~~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~  150 (340)
                      .+...|++++|.+.|++..+..      +   .+...+..+            ...+...|++++|.+.++.+.+.... 
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-  152 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN------PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-  152 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-
T ss_pred             HHHHcCChHHHHHHHHHHHhcC------CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-
Confidence            9999999999999999998773      2   244455444            57888999999999999999987643 


Q ss_pred             chhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh-hhHH----
Q 044786          151 NISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS-YTFS----  222 (340)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~----  222 (340)
                      +...+..+...+...|++++|...+++..+   .+..++..+...+...|++++|...|++..+.  .|+. ..+.    
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~  230 (359)
T 3ieg_A          153 DAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQ  230 (359)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHH
Confidence            678899999999999999999999999764   36778999999999999999999999999875  3442 2222    


Q ss_pred             --------HHHHhcccCCchhchHHHHHHHHHHhCCCccH----HHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHH
Q 044786          223 --------SVLKACGGVDDDGNCGRQMHANIVKIGLESDE----YVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIAS  288 (340)
Q Consensus       223 --------~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~  288 (340)
                              .+...+...|++++ +...++........ +.    ..+..+...|.+.|++++|.+.+++... .| +..+
T Consensus       231 ~~~~~~~~~~a~~~~~~~~~~~-A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  308 (359)
T 3ieg_A          231 VKKLNKLIESAEELIRDGRYTD-ATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNA  308 (359)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHH
Confidence                    22555788999977 77777766665422 22    3355678899999999999999999876 34 7889


Q ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHcCCccc-hhHHHHHHHHhh
Q 044786          289 WNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ-ESLINDLRIACS  332 (340)
Q Consensus       289 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~t~~~ll~a~~  332 (340)
                      |..+...|.+.|++++|.+.|++..+.  .|+ ......+..+..
T Consensus       309 ~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          309 LKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHHH
Confidence            999999999999999999999999866  455 344444444443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.87  E-value=1.8e-19  Score=159.93  Aligned_cols=322  Identities=11%  Similarity=-0.029  Sum_probs=245.0

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCc----------
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDF----------   77 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----------   77 (340)
                      |++..|..+...+.+.|++++|.+.++.+.+.  .+.+...+..+..++.+.|++++|...|+.+...+.          
T Consensus        37 p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  114 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGDLKKVVEMSTKALEL--KPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPML  114 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHH
T ss_pred             ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhcc--ChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHH
Confidence            67788888888888899999999999888877  345677888888888999999999888887642111          


Q ss_pred             ------------------------------------------------------------------------ccHHHHHH
Q 044786           78 ------------------------------------------------------------------------NSWAVMIV   85 (340)
Q Consensus        78 ------------------------------------------------------------------------~~~~~li~   85 (340)
                                                                                              ..+.....
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence                                                                                    11122222


Q ss_pred             HHH---cccChhHHHHHHHHHHH-----hhcCCcc---ccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhH
Q 044786           86 GYV---DVADYQECITLFAEMMK-----RKKGHML---LVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISL  154 (340)
Q Consensus        86 ~~~---~~g~~~~a~~~~~~m~~-----~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  154 (340)
                      .+.   +.|++++|...|+++.+     ....+..   .+.+..++..+...+...|++++|...++.+.+....  ...
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~  272 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNS  272 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHH
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHH
Confidence            233   37888899999888887     2100000   0334568888889999999999999999999888655  778


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccC
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGV  231 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~  231 (340)
                      +..+...|...|++++|...++++.+.   +..++..+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus       273 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  351 (514)
T 2gw1_A          273 YIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRE  351 (514)
T ss_dssp             HHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHc
Confidence            888999999999999999999987643   56778888999999999999999999988753 22456788888889999


Q ss_pred             CchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C---c----HHHHHHHHHHHHH---cC
Q 044786          232 DDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K---N----IASWNAMLVGYIR---NG  300 (340)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~---~----~~~~~~li~~~~~---~~  300 (340)
                      |++++ +...++...+.. +.+..++..+...|.+.|++++|.+.++++... |   +    ...|..+...|..   .|
T Consensus       352 ~~~~~-A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  429 (514)
T 2gw1_A          352 NKFDD-CETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVE  429 (514)
T ss_dssp             TCHHH-HHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTT
T ss_pred             CCHHH-HHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcC
Confidence            99877 777777666543 346678888899999999999999999887651 2   2    3388888889999   89


Q ss_pred             chHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCcc
Q 044786          301 LYVEATKFLYLMKASGIQIQESLINDLRIACSSISAS  337 (340)
Q Consensus       301 ~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~  337 (340)
                      ++++|.+.+++..... +.+..++..+-..+...|+.
T Consensus       430 ~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~  465 (514)
T 2gw1_A          430 NFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDI  465 (514)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCH
Confidence            9999999999987764 23456667777777777653

>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=99.86  E-value=6.6e-19  Score=147.21  Aligned_cols=271  Identities=11%  Similarity=-0.008  Sum_probs=130.8

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVM   83 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l   83 (340)
                      +.++..+......+...|++++|.++|+.+.+.  .+.+...+..++..+.+.|++++|...++++.+   .+...|..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEK--DPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            344444445555555555555555555555544  122333333444444555555555555554431   133344445


Q ss_pred             HHHHHccc-ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044786           84 IVGYVDVA-DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFY  162 (340)
Q Consensus        84 i~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  162 (340)
                      ...+...| ++++|.+.|++..+..      +.+...+..+...+...|++++|.+.++...+.... +...+..+...|
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~  169 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLE------KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEY  169 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTC------TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhC------CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHH
Confidence            55555555 5555555555554442      223344445555555555555555555555444322 223333444455


Q ss_pred             HhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHH
Q 044786          163 GKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGR  239 (340)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~  239 (340)
                      ...|++++|.+.+++..+.   +...+..+...+...|++++|...+++..+.....               ++      
T Consensus       170 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~---------------~~------  228 (330)
T 3hym_B          170 GLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAI---------------GN------  228 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTT---------------SC------
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhc---------------cc------
Confidence            5555555555555544321   33344444455555555555555554443321000               00      


Q ss_pred             HHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          240 QMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                             ....+.+..++..+...|.+.|++++|.+.+++...  +.+...|..+...|.+.|++++|.+.|++..+
T Consensus       229 -------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          229 -------EVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             -------SCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             -------cccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence                   000122345566666666666666666666666554  23455666666666666666666666666543

>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=99.86  E-value=1.2e-18  Score=145.58  Aligned_cols=250  Identities=14%  Similarity=0.022  Sum_probs=144.0

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTG  156 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  156 (340)
                      ...+..+...+...|++++|+++|+++.+..      +.+...+..++..+...|++++|..+++.+.+.... +...+.
T Consensus        22 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~------p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~   94 (330)
T 3hym_B           22 LDVVVSLAERHYYNCDFKMCYKLTSVVMEKD------PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWF   94 (330)
T ss_dssp             CTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC------CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHH
Confidence            3344444444444455555555555544442      222233333444444445555555555544443322 334444


Q ss_pred             HHHHHHHhhc-CHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCC
Q 044786          157 SLINFYGKFR-CLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVD  232 (340)
Q Consensus       157 ~l~~~~~~~~-~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  232 (340)
                      .+...+...| ++++|...|++..+.   +...|..+...+...|++++|...+++..+.. +.+...+..+...+...|
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHh
Confidence            4455555555 555555555544321   33445555555555555555555555555432 112333444555555555


Q ss_pred             chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-----------CCcHHHHHHHHHHHHHcCc
Q 044786          233 DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-----------KKNIASWNAMLVGYIRNGL  301 (340)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~~li~~~~~~~~  301 (340)
                      ++++ +...++...+.. +.+..++..+...|.+.|++++|...+++...           +.+..+|..+...|.+.|+
T Consensus       174 ~~~~-A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          174 NSKL-AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             CHHH-HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hHHH-HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            5544 444444444332 23567778888888999999999999988765           2245789999999999999


Q ss_pred             hHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCcc
Q 044786          302 YVEATKFLYLMKASGIQIQESLINDLRIACSSISAS  337 (340)
Q Consensus       302 ~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~~  337 (340)
                      +++|...+++..... +.+...+..+-..+...|+.
T Consensus       252 ~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~  286 (330)
T 3hym_B          252 YAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNF  286 (330)
T ss_dssp             HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccH
Confidence            999999999998764 23566777777777777653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.85  E-value=7.9e-19  Score=155.86  Aligned_cols=321  Identities=8%  Similarity=-0.090  Sum_probs=254.0

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ...+......+.+.|++++|.+.|+.+... .  |+...+..+..++.+.|++++|.+.|+.+.+   .+..+|..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALEL-K--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHH-C--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhc-C--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHH
Confidence            345677788899999999999999999988 3  7999999999999999999999999998873   355678999999


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCcc------------------------------------------------c-----
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHML------------------------------------------------L-----  113 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~------------------------------------------------~-----  113 (340)
                      +...|++++|...|+++...+.....                                                .     
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            99999999999999998776310000                                                0     


Q ss_pred             --------------------cchHHHHHHHHHHhh---hccchhhHHHHHHHHHH-----cCC--------CCchhHHHH
Q 044786          114 --------------------VFPAWIIVCVLKACV---CTMNMELGKQVHGLLFK-----LGS--------SRNISLTGS  157 (340)
Q Consensus       114 --------------------~~~~~~~~~ll~~~~---~~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~  157 (340)
                                          +.+...+......+.   +.|++++|..+++.+.+     ..-        +.+..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                011333333333333   38999999999999988     311        123567888


Q ss_pred             HHHHHHhhcCHHHHHHHHHHccc--CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchh
Q 044786          158 LINFYGKFRCLEDADFVFSQLKR--HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDG  235 (340)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~  235 (340)
                      +...+...|++++|...|+++.+  |+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHH
Confidence            89999999999999999998753  346778899999999999999999999998753 235677888889999999997


Q ss_pred             chHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      + +...++...... +.+...+..+...|.+.|++++|.+.++++..  +.+...|..+...|.+.|++++|...++++.
T Consensus       322 ~-A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          322 Q-AGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             H-HHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             H-HHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            7 777777776653 33677889999999999999999999999876  3467889999999999999999999999987


Q ss_pred             HcCCc-cc----hhHHHHHHHHhhh---cCc
Q 044786          314 ASGIQ-IQ----ESLINDLRIACSS---ISA  336 (340)
Q Consensus       314 ~~g~~-~~----~~t~~~ll~a~~~---~g~  336 (340)
                      ...-. ++    ...+..+-..+..   .|+
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  430 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVEN  430 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTH
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCC
Confidence            65321 11    2267777777766   554

>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=99.82  E-value=7.5e-17  Score=143.97  Aligned_cols=298  Identities=9%  Similarity=-0.063  Sum_probs=189.1

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC-cCC---------
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP-LRD---------   76 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~-~~~---------   76 (340)
                      |.++..|..+...+.+.|++++|.+.++.+...  -+.+...+..+..++...|++++|.+.|+.+. .|+         
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  133 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEI--KPDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPM  133 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHH
Confidence            345677778888888888888888888888876  24467778888888888888888877764331 000         


Q ss_pred             --------------------------------------------------------------------------------
Q 044786           77 --------------------------------------------------------------------------------   76 (340)
Q Consensus        77 --------------------------------------------------------------------------------   76 (340)
                                                                                                      
T Consensus       134 ~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  213 (537)
T 3fp2_A          134 LERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLV  213 (537)
T ss_dssp             HHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHH
Confidence                                                                                            


Q ss_pred             -----------------------------cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHh
Q 044786           77 -----------------------------FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKAC  127 (340)
Q Consensus        77 -----------------------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~  127 (340)
                                                   ..++..+...+...|++++|.+.|++..+.       .|+..++..+...+
T Consensus       214 a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~~l~~~~  286 (537)
T 3fp2_A          214 ANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL-------HPTPNSYIFLALTL  286 (537)
T ss_dssp             HHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------CCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc-------CCCchHHHHHHHHH
Confidence                                         001333334455566666666666666665       34456666666777


Q ss_pred             hhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHH
Q 044786          128 VCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFN  204 (340)
Q Consensus       128 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~  204 (340)
                      ...|++++|...++.+.+.... +..++..+...|...|++++|...|++..+   .+...|..+...+...|++++|..
T Consensus       287 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~  365 (537)
T 3fp2_A          287 ADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEA  365 (537)
T ss_dssp             CCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777777766665433 455666677777777777777777766542   245566667777777777777777


Q ss_pred             HHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCC-c----cHHHHHHHHHHHhcc----------CC
Q 044786          205 DFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLE-S----DEYVQCGLVDMYGKC----------RL  269 (340)
Q Consensus       205 ~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~li~~~~~~----------~~  269 (340)
                      .+++..+.. +.+...+..+...+...|++++ +...++...+.... +    ....+..+...|.+.          |+
T Consensus       366 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  443 (537)
T 3fp2_A          366 FFNETKLKF-PTLPEVPTFFAEILTDRGDFDT-AIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEK  443 (537)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHH
T ss_pred             HHHHHHHhC-CCChHHHHHHHHHHHHhCCHHH-HHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhH
Confidence            777776642 2234456666666777777755 55555444432210 0    111233334455555          77


Q ss_pred             HHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          270 LRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       270 ~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      +++|...|++...  +.+...|..+...|.+.|++++|.+.|++..+..
T Consensus       444 ~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          444 FNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            7777777776654  2356667777777777777777777777776553

>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=99.82  E-value=2.1e-18  Score=146.58  Aligned_cols=254  Identities=9%  Similarity=0.005  Sum_probs=120.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVL  124 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll  124 (340)
                      .+..+...+.+.|++++|...|+++.+   .+..+|..+...+...|++++|++.|+++.+..      +.+..++..+.
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~------~~~~~~~~~l~  139 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK------PDNQTALMALA  139 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC------CCCHHHHHHHH
Confidence            344445555555555555555555442   123344555555555555555555555555542      23444555555


Q ss_pred             HHhhhccchhhHHHHHHHHHHcCCCCchhHHHH--------------HHHHHHhhcCHHHHHHHHHHccc--C---Chhh
Q 044786          125 KACVCTMNMELGKQVHGLLFKLGSSRNISLTGS--------------LINFYGKFRCLEDADFVFSQLKR--H---NTVV  185 (340)
Q Consensus       125 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--------------l~~~~~~~~~~~~a~~~~~~~~~--~---~~~~  185 (340)
                      ..+...|++++|...++.+.+............              .+..+...|++++|...|+++.+  |   +..+
T Consensus       140 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~  219 (368)
T 1fch_A          140 VSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDV  219 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHH
Confidence            555555555555555555554432211111100              12222255555555555555431  1   2344


Q ss_pred             HHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHh
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYG  265 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  265 (340)
                      +..+...|...|++++|...|++..+.. +.+...+..+...+...|++++ +...++...+.. +.+..++..+...|.
T Consensus       220 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~al~~~-~~~~~~~~~l~~~~~  296 (368)
T 1fch_A          220 QCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEE-AVAAYRRALELQ-PGYIRSRYNLGISCI  296 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            5555555555555555555555554431 1123445555555555555544 444444443331 223445555555555


Q ss_pred             ccCCHHHHHHHHHHhhc-CC-c-----------HHHHHHHHHHHHHcCchHHHHHHHH
Q 044786          266 KCRLLRDAERVFELIVD-KK-N-----------IASWNAMLVGYIRNGLYVEATKFLY  310 (340)
Q Consensus       266 ~~~~~~~A~~~~~~~~~-~~-~-----------~~~~~~li~~~~~~~~~~~a~~~~~  310 (340)
                      +.|++++|...|++... .| +           ..+|..+..+|...|++++|..+++
T Consensus       297 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          297 NLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            55555555555555443 11 1           3455555555555555555555443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.81  E-value=2e-20  Score=169.88  Aligned_cols=117  Identities=11%  Similarity=0.116  Sum_probs=79.2

Q ss_pred             hhHHHHHHHHHHhhcCHHHHHHHHHHcc-------cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHH
Q 044786          152 ISLTGSLINFYGKFRCLEDADFVFSQLK-------RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSV  224 (340)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  224 (340)
                      ..||++||++||+.|++++|.++|++|.       .||++|||+||.+||+.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4467777777777777777777775543       356777777777777777777777777777777777777777777


Q ss_pred             HHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccC
Q 044786          225 LKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCR  268 (340)
Q Consensus       225 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  268 (340)
                      |.++++.|+..+.+..+++.|.+.|+.||..+|++++.++.+.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            77777766643446667777777777777777776665554443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=1.2e-17  Score=141.96  Aligned_cols=256  Identities=9%  Similarity=-0.059  Sum_probs=166.8

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      +...+..+...+.+.|++++|.+.|+.+...  .+.+..++..+...+.+.|++++|.+.|++..+   .+..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQ--DPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            4455777888888888888888888888876  345678888888888888888888888887762   34567888888


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccch-----------HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC-chh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFP-----------AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR-NIS  153 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~  153 (340)
                      .|...|++++|++.|+++.+..       |+           ...+..+...+...|++++|.+.++.+.+..... +..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~-------p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  214 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN-------PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPD  214 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-------HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC-------ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHH
Confidence            8888888888888888888762       32           1223344667777777888888877777665331 466


Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhccc
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG  230 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  230 (340)
                      ++..+...|...|++++|...|++..+   .+..+|+.+..+|...|++++|...|++..+.  .|+             
T Consensus       215 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~-------------  279 (365)
T 4eqf_A          215 LQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPG-------------  279 (365)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC-------------
Confidence            677777777777777777777776542   24556777777777777777777777766653  232             


Q ss_pred             CCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-------------cHHHHHHHHHHH
Q 044786          231 VDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-------------NIASWNAMLVGY  296 (340)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-------------~~~~~~~li~~~  296 (340)
                                            +..++..+...|.+.|++++|.+.|++... .|             +...|..+..++
T Consensus       280 ----------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  337 (365)
T 4eqf_A          280 ----------------------FIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIAL  337 (365)
T ss_dssp             ----------------------CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHH
T ss_pred             ----------------------chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHH
Confidence                                  233444455555555555555555555443 11             244566666666


Q ss_pred             HHcCchHHHHHHHH
Q 044786          297 IRNGLYVEATKFLY  310 (340)
Q Consensus       297 ~~~~~~~~a~~~~~  310 (340)
                      ...|+.+.+.++.+
T Consensus       338 ~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          338 SLMDQPELFQAANL  351 (365)
T ss_dssp             HHHTCHHHHHHHHT
T ss_pred             HHcCcHHHHHHHHH
Confidence            66666666555544

>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=99.81  E-value=4.8e-17  Score=145.22  Aligned_cols=318  Identities=8%  Similarity=-0.065  Sum_probs=207.5

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ...|..+...+.+.|++++|.+.|+.+...  .+.+...+..+..++.+.|++++|.+.|++..+   .+..++..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIEL--DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHH
Confidence            456778888899999999999999999987  355789999999999999999999999999873   355678888999


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCc-------------------------------------------------------
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHM-------------------------------------------------------  111 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~-------------------------------------------------------  111 (340)
                      +...|++++|.+.|+.+.... ...                                                       
T Consensus       103 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSLNG-DFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHhcCC-CCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            999999999998885331100 000                                                       


Q ss_pred             ------------------------------------------------cccch--------HHHHHHHHHHhhhccchhh
Q 044786          112 ------------------------------------------------LLVFP--------AWIIVCVLKACVCTMNMEL  135 (340)
Q Consensus       112 ------------------------------------------------~~~~~--------~~~~~~ll~~~~~~~~~~~  135 (340)
                                                                      ...|+        ..++..+...+...|++++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHH
Confidence                                                            00111        1234444455556666677


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          136 GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       136 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      |...++...+...  +...+..+...|...|++++|...|++..+   .+..+|..+...+...|++++|...|++..+.
T Consensus       262 A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  339 (537)
T 3fp2_A          262 AQVLLQESINLHP--TPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL  339 (537)
T ss_dssp             HHHHHHHHHHHCC--CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC--CchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            7777766666543  355666666677777777777777766542   24556666777777777777777777777664


Q ss_pred             ccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C-------
Q 044786          213 RIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K-------  284 (340)
Q Consensus       213 ~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~-------  284 (340)
                      . +.+...+..+...+...|++++ +...++...+.. +.+...+..+...|...|++++|.+.|+++... |       
T Consensus       340 ~-~~~~~~~~~la~~~~~~g~~~~-A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  416 (537)
T 3fp2_A          340 N-PENVYPYIQLACLLYKQGKFTE-SEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHV  416 (537)
T ss_dssp             C-TTCSHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSS
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHH
Confidence            2 1234556666666777777755 555555555442 334556666777777777777777777766541 1       


Q ss_pred             cHHHHHHHHHHHHHc----------CchHHHHHHHHHHHHcCCccchhHHHHHHHHhhhcCc
Q 044786          285 NIASWNAMLVGYIRN----------GLYVEATKFLYLMKASGIQIQESLINDLRIACSSISA  336 (340)
Q Consensus       285 ~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~g~~~~~~t~~~ll~a~~~~g~  336 (340)
                      ....+..+...|.+.          |++++|...|++..+.. +.+...+..+-..+...|+
T Consensus       417 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~  477 (537)
T 3fp2_A          417 GIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEK  477 (537)
T ss_dssp             TTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcc
Confidence            112233344555666          77777777777776553 2234556666666666654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=1.4e-17  Score=141.47  Aligned_cols=253  Identities=12%  Similarity=0.000  Sum_probs=203.2

Q ss_pred             CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHH
Q 044786           76 DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLT  155 (340)
Q Consensus        76 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  155 (340)
                      +...|..+...+.+.|++++|++.|+++.+..      +.+..++..+...+...|++++|...|+.+.+.... +..++
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~  136 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD------PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKAL  136 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC------cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHH
Confidence            45568899999999999999999999999884      557789999999999999999999999999988643 67889


Q ss_pred             HHHHHHHHhhcCHHHHHHHHHHcccCC-------------hhhHHHHHHHHhccCchhHHHHHHHHHhhcccC-CChhhH
Q 044786          156 GSLINFYGKFRCLEDADFVFSQLKRHN-------------TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIK-KNSYTF  221 (340)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~  221 (340)
                      ..+...|...|++++|...|+++.+.+             ...+..+...+...|++++|...++++.+.... ++..++
T Consensus       137 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  216 (365)
T 4eqf_A          137 MALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQ  216 (365)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHH
T ss_pred             HHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHH
Confidence            999999999999999999999986431             122344588899999999999999999886422 157788


Q ss_pred             HHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHc
Q 044786          222 SSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRN  299 (340)
Q Consensus       222 ~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~  299 (340)
                      ..+...+...|++++ +...++...+.. +.+..+|..+...|.+.|++++|.+.|++... .| +..+|..+...|.+.
T Consensus       217 ~~l~~~~~~~g~~~~-A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  294 (365)
T 4eqf_A          217 TGLGVLFHLSGEFNR-AIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINL  294 (365)
T ss_dssp             HHHHHHHHHHTCHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHH-HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHC
Confidence            899999999999977 777777777653 44788999999999999999999999999876 34 688999999999999


Q ss_pred             CchHHHHHHHHHHHHcCCc-----------cchhHHHHHHHHhhhcCcc
Q 044786          300 GLYVEATKFLYLMKASGIQ-----------IQESLINDLRIACSSISAS  337 (340)
Q Consensus       300 ~~~~~a~~~~~~m~~~g~~-----------~~~~t~~~ll~a~~~~g~~  337 (340)
                      |++++|...|++..+..-.           .+..++..+-.++...|..
T Consensus       295 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  343 (365)
T 4eqf_A          295 GAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQP  343 (365)
T ss_dssp             TCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCH
T ss_pred             CCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcH
Confidence            9999999999998765311           1356778887777777654

>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=99.79  E-value=5.1e-17  Score=137.99  Aligned_cols=295  Identities=12%  Similarity=0.008  Sum_probs=214.0

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHH-HHhhcCc---C----CcccHHHHHHHHHcccChh
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQ-LFDEMPL---R----DFNSWAVMIVGYVDVADYQ   94 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~-~~~~~~~---~----~~~~~~~li~~~~~~g~~~   94 (340)
                      .+.++.+...|+.+.+.   .|+         .+...|++++|.+ .|++...   .    +...+..+...+...|+++
T Consensus        14 ~~~~~~~~~~~~~~~~~---~~~---------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~   81 (368)
T 1fch_A           14 VDFWDKLQAELEEMAKR---DAE---------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLP   81 (368)
T ss_dssp             --------------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHHHcC---Cch---------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHH
Confidence            34455555666665544   122         2344588999998 8886542   1    3557889999999999999


Q ss_pred             HHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHH
Q 044786           95 ECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFV  174 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (340)
                      +|...|+++.+..      +.+..++..+...+...|++++|...++.+.+.... +..++..+...|...|++++|.+.
T Consensus        82 ~A~~~~~~al~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~  154 (368)
T 1fch_A           82 NAVLLFEAAVQQD------PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEI  154 (368)
T ss_dssp             HHHHHHHHHHHSC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhC------CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999874      557778999999999999999999999999988643 778899999999999999999999


Q ss_pred             HHHcccC---ChhhHHH---------------HHHHHhccCchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchh
Q 044786          175 FSQLKRH---NTVVWTA---------------KIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDG  235 (340)
Q Consensus       175 ~~~~~~~---~~~~~~~---------------li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~  235 (340)
                      |+++.+.   +...+..               .+..+...|++++|...|+++.+..... +..++..+...+...|+++
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~  234 (368)
T 1fch_A          155 LRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYD  234 (368)
T ss_dssp             HHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHH
Confidence            9997643   2222221               2334448999999999999998853221 4678888999999999997


Q ss_pred             chHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      + +...++...... +.+..++..+...|.+.|++++|.+.|++...  +.+...|..+...|.+.|++++|...|++..
T Consensus       235 ~-A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  312 (368)
T 1fch_A          235 K-AVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEAL  312 (368)
T ss_dssp             H-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             H-HHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            7 777777776653 44678999999999999999999999999876  3467899999999999999999999999987


Q ss_pred             HcCCcc----------chhHHHHHHHHhhhcCccc
Q 044786          314 ASGIQI----------QESLINDLRIACSSISASK  338 (340)
Q Consensus       314 ~~g~~~----------~~~t~~~ll~a~~~~g~~~  338 (340)
                      ...-..          ...++..+-.++...|..+
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          313 NMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HhCCCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            653211          1578888888998888754

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.79  E-value=8.2e-20  Score=165.95  Aligned_cols=147  Identities=11%  Similarity=-0.031  Sum_probs=122.3

Q ss_pred             hhhHHHHHHHHhccCchhHHHHHHHHHh---hcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHH
Q 044786          183 TVVWTAKIVNNCREGHFHQVFNDFKEMG---RERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCG  259 (340)
Q Consensus       183 ~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (340)
                      ..|||++|.+||+.|++++|.++|++|.   ..|+.||..|||++|.+||+.|++++ |..+++.|...|+.||..|||+
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~e-A~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKE-LVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHH-HHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHH-HHHHHHHHHHcCCCCcHHHHHH
Confidence            4589999999999999999999998875   46899999999999999999999977 9999999999999999999999


Q ss_pred             HHHHHhccCCH-HHHHHHHHHhhc---CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccc------hhHHHHHHH
Q 044786          260 LVDMYGKCRLL-RDAERVFELIVD---KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ------ESLINDLRI  329 (340)
Q Consensus       260 li~~~~~~~~~-~~A~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~------~~t~~~ll~  329 (340)
                      ||+++++.|+. ++|.++|++|..   .||..+|+.++.++.+.    .+++..+++ .-++.|+      ..|...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            99999999984 789999999987   48999999998766554    455555555 4466665      556666666


Q ss_pred             HhhhcC
Q 044786          330 ACSSIS  335 (340)
Q Consensus       330 a~~~~g  335 (340)
                      -+++.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            666554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.79  E-value=3.3e-16  Score=132.24  Aligned_cols=279  Identities=10%  Similarity=0.037  Sum_probs=226.2

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCc------ccH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDF------NSW   80 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~------~~~   80 (340)
                      |.++..+..+...+...|++++|.+.++.+.+.  .+.+...+..+...+...|++++|.+.|+...+.++      ..+
T Consensus        34 p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  111 (359)
T 3ieg_A           34 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAE  111 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHH
Confidence            345678888999999999999999999999987  344778999999999999999999999999875443      234


Q ss_pred             HHH------------HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           81 AVM------------IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        81 ~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      ..+            ...+...|++++|.+.++++.+..      +.+...+..+...+...|++++|...++...+...
T Consensus       112 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~  185 (359)
T 3ieg_A          112 SQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC------VWDAELRELRAECFIKEGEPRKAISDLKAASKLKS  185 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC------CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            434            578889999999999999999884      55678899999999999999999999999998753


Q ss_pred             CCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHH------------HHHHHHhccCchhHHHHHHHHHhhcc
Q 044786          149 SRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWT------------AKIVNNCREGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------------~li~~~~~~~~~~~a~~~~~~m~~~~  213 (340)
                       .+..++..+...|...|++++|...|++..+.   +...+.            .+...+.+.|++++|...+++..+..
T Consensus       186 -~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  264 (359)
T 3ieg_A          186 -DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE  264 (359)
T ss_dssp             -CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             -CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence             36788999999999999999999999987642   233332            23667889999999999999998853


Q ss_pred             cCCChh-----hHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cH
Q 044786          214 IKKNSY-----TFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NI  286 (340)
Q Consensus       214 ~~p~~~-----t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~  286 (340)
                        |+..     .+..+...+...|++++ +...++...+.. +.+..++..+...|.+.|++++|.+.|++... .| +.
T Consensus       265 --~~~~~~~~~~~~~la~~~~~~~~~~~-A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~  340 (359)
T 3ieg_A          265 --PSVAEYTVRSKERICHCFSKDEKPVE-AIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQ  340 (359)
T ss_dssp             --CSSHHHHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCH
T ss_pred             --CCchHHHHHHHHHHHHHHHHccCHHH-HHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCh
Confidence              4432     24456678889999977 777777777653 44788999999999999999999999999886 34 46


Q ss_pred             HHHHHHHHHHHH
Q 044786          287 ASWNAMLVGYIR  298 (340)
Q Consensus       287 ~~~~~li~~~~~  298 (340)
                      ..+..+..+...
T Consensus       341 ~~~~~l~~~~~~  352 (359)
T 3ieg_A          341 QIREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666655543

>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=99.79  E-value=3.5e-17  Score=136.53  Aligned_cols=257  Identities=7%  Similarity=-0.041  Sum_probs=173.1

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      +...+......+...|++++|.++|+.+.+.  .+.+...+..+...+.+.|++++|.+.|++..+   .+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQA--APEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHH
Confidence            4556677788888999999999999999877  345778888888999999999999999988763   35557888888


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHH--------------HH-HhhhccchhhHHHHHHHHHHcCCCC
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV--------------LK-ACVCTMNMELGKQVHGLLFKLGSSR  150 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~  150 (340)
                      .+...|++++|.+.+++.....      +.+...+..+              .. .+...|++++|.+.++.+.+.... 
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-  170 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ------PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-  170 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS------TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC------CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-
Confidence            8999999999999999988773      1222222222              22 366667777777777777666533 


Q ss_pred             chhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHh
Q 044786          151 NISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKA  227 (340)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~  227 (340)
                      +...+..+...|...|++++|...+++..+   .+..+|..+...+...|++++|...+++..+..  |+          
T Consensus       171 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~----------  238 (327)
T 3cv0_A          171 DAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--PG----------  238 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT----------
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC----------
Confidence            556666667777777777777777766542   234556666666666666666666666665431  21          


Q ss_pred             cccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-------------cHHHHHHHH
Q 044786          228 CGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-------------NIASWNAML  293 (340)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-------------~~~~~~~li  293 (340)
                                               +..++..+...|.+.|++++|.+.+++... .|             +...|..+.
T Consensus       239 -------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~  293 (327)
T 3cv0_A          239 -------------------------YVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFR  293 (327)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHH
T ss_pred             -------------------------CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHH
Confidence                                     233445556666666666666666666544 12             355666677


Q ss_pred             HHHHHcCchHHHHHHHHH
Q 044786          294 VGYIRNGLYVEATKFLYL  311 (340)
Q Consensus       294 ~~~~~~~~~~~a~~~~~~  311 (340)
                      .++.+.|++++|..++++
T Consensus       294 ~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          294 MLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHHHTTCHHHHHHHTTC
T ss_pred             HHHHhcCCHHHHHHHHHH
Confidence            777777777777666654

>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=99.77  E-value=1.5e-16  Score=132.63  Aligned_cols=251  Identities=9%  Similarity=-0.044  Sum_probs=178.9

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTG  156 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  156 (340)
                      ...+..+...+...|++++|..+|+++.+..      +.+...+..+...+...|++++|.+.++.+.+.... +..++.
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~   93 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA------PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHA   93 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHH
Confidence            3455666666777777777777777776663      335556666677777777777777777777666432 455666


Q ss_pred             HHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHH--------------HH-HHhccCchhHHHHHHHHHhhcccCCCh
Q 044786          157 SLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAK--------------IV-NNCREGHFHQVFNDFKEMGRERIKKNS  218 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l--------------i~-~~~~~~~~~~a~~~~~~m~~~~~~p~~  218 (340)
                      .+...|...|++++|.+.++++.+.   +...+..+              .. .+...|++++|...++++.+.. +.+.
T Consensus        94 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  172 (327)
T 3cv0_A           94 ALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDA  172 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCH
Confidence            6777777777777777777766532   22222222              22 3677888888888888887753 2356


Q ss_pred             hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHH
Q 044786          219 YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGY  296 (340)
Q Consensus       219 ~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~  296 (340)
                      ..+..+...+...|++++ +...++...+.. +.+..++..+...|...|++++|.+.|++...  +.+..+|..+...|
T Consensus       173 ~~~~~la~~~~~~~~~~~-A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~  250 (327)
T 3cv0_A          173 QLHASLGVLYNLSNNYDS-AAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSY  250 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHH-HHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            677778888888888866 666666666543 34677889999999999999999999999875  34678899999999


Q ss_pred             HHcCchHHHHHHHHHHHHcCCcc-----------chhHHHHHHHHhhhcCcc
Q 044786          297 IRNGLYVEATKFLYLMKASGIQI-----------QESLINDLRIACSSISAS  337 (340)
Q Consensus       297 ~~~~~~~~a~~~~~~m~~~g~~~-----------~~~t~~~ll~a~~~~g~~  337 (340)
                      .+.|++++|.+.+++.....-..           +..++..+-.++...|..
T Consensus       251 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  302 (327)
T 3cv0_A          251 SNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRP  302 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCH
T ss_pred             HHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCH
Confidence            99999999999999987764332           467888888888888764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.77  E-value=1.1e-15  Score=125.28  Aligned_cols=245  Identities=8%  Similarity=-0.011  Sum_probs=157.8

Q ss_pred             HHhcCChhHHHHHHhhcCcCCcc----cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc
Q 044786           56 HVSCGQLDTARQLFDEMPLRDFN----SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM  131 (340)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~  131 (340)
                      ....|++..|+..++.+...++.    ..-.+.++|...|+++.|+..++.   ..      +|+..++..+...+...+
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~~------~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---SS------APELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---TS------CHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---cC------ChhHHHHHHHHHHHcCCC
Confidence            34556667777666665533322    234455666777777766665533   11      456666666667777777


Q ss_pred             chhhHHHHHHHHHHcCCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          132 NMELGKQVHGLLFKLGSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      +.++|.+.++.+...+..| +...+..+...|...|++++|.+.+++  ..+...+..+...+.+.|++++|...|+++.
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  157 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQ  157 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            7777777777776665444 344555566777777777777777777  4466677777777777788888888777777


Q ss_pred             hcccCCChhhH---HHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-C-Cc
Q 044786          211 RERIKKNSYTF---SSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-K-KN  285 (340)
Q Consensus       211 ~~~~~p~~~t~---~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~-~~  285 (340)
                      +.  .|+....   ...+..+...|++++ +..+++.+.+. .+.++..++.+..++.+.|++++|.+.|++... . .+
T Consensus       158 ~~--~p~~~~~~l~~a~~~l~~~~~~~~e-A~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~  233 (291)
T 3mkr_A          158 DQ--DEDATLTQLATAWVSLAAGGEKLQD-AYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGH  233 (291)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHCTTHHHH-HHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hh--CcCcHHHHHHHHHHHHHhCchHHHH-HHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            65  3543211   112233334566655 66666666665 355777777788888888888888888877655 2 36


Q ss_pred             HHHHHHHHHHHHHcCchHH-HHHHHHHHHHc
Q 044786          286 IASWNAMLVGYIRNGLYVE-ATKFLYLMKAS  315 (340)
Q Consensus       286 ~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~  315 (340)
                      ..++..++..+...|+.++ +.++++++.+.
T Consensus       234 ~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          234 PETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            6677777777777887765 45677777655

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=3.4e-16  Score=128.44  Aligned_cols=271  Identities=7%  Similarity=0.007  Sum_probs=207.6

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCH--HHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChh
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTL--LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQ   94 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~   94 (340)
                      |+.....|+++.|+..++....   ..|+.  .....+..+|...|+++.|+..++....++..++..+...+...++.+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~---~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP---SSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC---CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHHhccc---CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHH
Confidence            4556678999999998877653   34443  355667889999999999999888765556667888999999999999


Q ss_pred             HHHHHHHHHHHhhcCCccccc-hHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHH
Q 044786           95 ECITLFAEMMKRKKGHMLLVF-PAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADF  173 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  173 (340)
                      +|++.++++...  +.   .| +...+..+...+.+.|++++|.+.++.      ..+...+..+...|.+.|++++|.+
T Consensus        83 ~A~~~l~~ll~~--~~---~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           83 AIVAELDREMSR--SV---DVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             HHHHHHHHHHHS--CC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhc--cc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999876  22   24 455677777999999999999999987      4577889999999999999999999


Q ss_pred             HHHHccc--CChhhH---HHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHh
Q 044786          174 VFSQLKR--HNTVVW---TAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       174 ~~~~~~~--~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                      .|+++.+  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++ +...++.....
T Consensus       152 ~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~e-A~~~l~~al~~  229 (291)
T 3mkr_A          152 ELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEA-AEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHH
T ss_pred             HHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHh
Confidence            9999874  332211   22334444569999999999999987 34567788999999999999987 77777777665


Q ss_pred             CCCccHHHHHHHHHHHhccCCHHH-HHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHH
Q 044786          249 GLESDEYVQCGLVDMYGKCRLLRD-AERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATK  307 (340)
Q Consensus       249 ~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~  307 (340)
                      . +-++.++..++..+...|+.++ +.++++++.. .|+...   +.....+.+.++++..
T Consensus       230 ~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          230 D-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHH---HHHHHHHHHHHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChH---HHHHHHHHHHHHHHHH
Confidence            3 4478889999999999999876 6789888775 453322   2233445555555544

>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=99.75  E-value=1.7e-18  Score=146.00  Aligned_cols=274  Identities=10%  Similarity=0.105  Sum_probs=115.8

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcc
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDV   90 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~   90 (340)
                      .+.+.||.   +.|++++|.++++++.       ++.+|..|..++.+.|++++|++.|.+  .+|...|..++.++...
T Consensus         7 ~a~~~ll~---~~~~ld~A~~fae~~~-------~~~vWs~La~A~l~~g~~~eAIdsfik--a~D~~~y~~V~~~ae~~   74 (449)
T 1b89_A            7 SAVQVLIE---HIGNLDRAYEFAERCN-------EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTS   74 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHH---HccCHHHHHHHHHhCC-------ChHHHHHHHHHHHHcCCHHHHHHHHHc--CCCHHHHHHHHHHHHhC
Confidence            33444554   5678999999998883       235999999999999999999999965  46777999999999999


Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      |++++|++.++..++.       .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|++++
T Consensus        75 g~~EeAi~yl~~ark~-------~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yee  140 (449)
T 1b89_A           75 GNWEELVKYLQMARKK-------ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDA  140 (449)
T ss_dssp             -----------------------------------------CHHHHTTTTT-------CC----------------CTTT
T ss_pred             CCHHHHHHHHHHHHHh-------CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHH
Confidence            9999999988777765       5667889999999999999999998885       3677799999999999999999


Q ss_pred             HHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCC
Q 044786          171 ADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGL  250 (340)
Q Consensus       171 a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~  250 (340)
                      |...|..+     ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++. |......     +
T Consensus       141 A~~~Y~~a-----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~l-A~~~~l~-----L  203 (449)
T 1b89_A          141 AKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRL-AQMCGLH-----I  203 (449)
T ss_dssp             HHHHHHHT-----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHH-HHHTTTT-----T
T ss_pred             HHHHHHHh-----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHH-HHHHHHH-----H
Confidence            99999987     47999999999999999999999988      267899999999999999966 5332221     2


Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHHHH
Q 044786          251 ESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLINDLR  328 (340)
Q Consensus       251 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~ll  328 (340)
                      ...+.-...++..|.+.|++++|..+++....  +.....|+-|...|++-+ +++.++-++.--      +..-..-+|
T Consensus       204 ~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~-p~k~~ehl~~~~------~~ini~k~~  276 (449)
T 1b89_A          204 VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHLELFW------SRVNIPKVL  276 (449)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHS------TTSCHHHHH
T ss_pred             HhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcC-HHHHHHHHHHHH------HHhcCcHHH
Confidence            33444455799999999999999999998875  346678888877787653 444443333221      222345567


Q ss_pred             HHhhhc
Q 044786          329 IACSSI  334 (340)
Q Consensus       329 ~a~~~~  334 (340)
                      ++|.+.
T Consensus       277 ~~~~~~  282 (449)
T 1b89_A          277 RAAEQA  282 (449)
T ss_dssp             HHHHTT
T ss_pred             HHHHHH
Confidence            777654

>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=99.75  E-value=5.5e-18  Score=142.89  Aligned_cols=255  Identities=11%  Similarity=0.023  Sum_probs=102.8

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CCcccHHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RDFNSWAVMIV   85 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~   85 (340)
                      +++..|..+..++.+.|++++|++.|.+.       +|..+|..++..+...|++++|+..++...+  +++.+.+.++.
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~  102 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIF  102 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHH
Confidence            44567888888888888888888888432       3666888888888888888888886665552  34566778888


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      +|.+.|+++++.++++            .|+..+|..+...|...|.+++|..+|..+         ..|..+.+++.+.
T Consensus       103 ~Y~Klg~l~e~e~f~~------------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~L  161 (449)
T 1b89_A          103 ALAKTNRLAELEEFIN------------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHL  161 (449)
T ss_dssp             ------CHHHHTTTTT------------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHc------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHh
Confidence            8888888888777663            355568888888888888888888888755         3678888888888


Q ss_pred             cCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          166 RCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      |++++|.+.++++  .++.+|..++.+|+..|+++.|......+.   +.|+.  ...++..|.+.|.+++ +..+++..
T Consensus       162 g~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad~--l~~lv~~Yek~G~~eE-ai~lLe~a  233 (449)
T 1b89_A          162 GEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEE-LITMLEAA  233 (449)
T ss_dssp             TCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHHH--HHHHHHHHHHTTCHHH-HHHHHHHH
T ss_pred             ccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHhh--HHHHHHHHHHCCCHHH-HHHHHHHH
Confidence            8888888888887  377788888888888888888855544322   23333  4457777888888876 55555554


Q ss_pred             HHhCCCccHHHHHHHHHHHhcc--CCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHH
Q 044786          246 VKIGLESDEYVQCGLVDMYGKC--RLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEA  305 (340)
Q Consensus       246 ~~~~~~~~~~~~~~li~~~~~~--~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  305 (340)
                      .... +-....|+-|-..|++-  +++.+..+.|.   .+-|+   ..+|++|....-|.+.
T Consensus       234 L~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini---~k~~~~~~~~~~w~e~  288 (449)
T 1b89_A          234 LGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNI---PKVLRAAEQAHLWAEL  288 (449)
T ss_dssp             TTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCH---HHHHHHHHTTTCHHHH
T ss_pred             hCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcC---cHHHHHHHHHHHHHHH
Confidence            4333 34556666666666653  33444444433   22222   2456666654444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.70  E-value=1.9e-15  Score=118.51  Aligned_cols=196  Identities=9%  Similarity=-0.006  Sum_probs=153.8

Q ss_pred             CCCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHH
Q 044786            6 LPITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAV   82 (340)
Q Consensus         6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~   82 (340)
                      +|+++..+..+...+.+.|++++|...|+...+.  -+.+...+..+...+.+.|++++|+..|++..+  | +...+..
T Consensus         1 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~   78 (217)
T 2pl2_A            1 MQTAEQNPLRLGVQLYALGRYDAALTLFERALKE--NPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMV   78 (217)
T ss_dssp             ---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            4788889999999999999999999999999876  455788899999999999999999999998763  3 5557888


Q ss_pred             HHHHHHcc-----------cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc
Q 044786           83 MIVGYVDV-----------ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN  151 (340)
Q Consensus        83 li~~~~~~-----------g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  151 (340)
                      +...+...           |++++|+..|++..+..      +-+...+..+...+...|++++|...+++..+..  .+
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~------P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~  150 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN------PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DT  150 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cc
Confidence            88899999           99999999999999884      4456788889999999999999999999999888  68


Q ss_pred             hhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          152 ISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      ...+..+..+|...|++++|...|++..+  | +...+..+...+...|++++|+..|++...
T Consensus       151 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          151 PEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC----------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            88889999999999999999999998753  3 567788888999999999999998887653

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.67  E-value=1.4e-12  Score=115.20  Aligned_cols=177  Identities=12%  Similarity=0.007  Sum_probs=87.8

Q ss_pred             ccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh----hcCHHHHHHHHHHcccC-ChhhHHHHHHHHhc----cCchh
Q 044786          130 TMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK----FRCLEDADFVFSQLKRH-NTVVWTAKIVNNCR----EGHFH  200 (340)
Q Consensus       130 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~  200 (340)
                      .+++++|.+.|+...+.|   +...+..+...|..    .+++++|...|++..+. +...+..+...|..    .++++
T Consensus       200 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~  276 (490)
T 2xm6_A          200 ERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPL  276 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHH
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHH
Confidence            445555555555544443   23344444444443    44555555555554332 33344444444444    45555


Q ss_pred             HHHHHHHHHhhcccCCChhhHHHHHHhcccC-----CchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccC---CHHH
Q 044786          201 QVFNDFKEMGRERIKKNSYTFSSVLKACGGV-----DDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCR---LLRD  272 (340)
Q Consensus       201 ~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~  272 (340)
                      +|+..|++..+.|   +...+..+-..+...     ++.++ +...++...+.+   +...+..+-..|.+.|   ++++
T Consensus       277 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~-A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~  349 (490)
T 2xm6_A          277 KALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQ-AISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKK  349 (490)
T ss_dssp             HHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHH-HHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHH
T ss_pred             HHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHH-HHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHH
Confidence            6666665555432   122233333333332     44434 444444444433   2334444444554434   5566


Q ss_pred             HHHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHHHHHHHcC
Q 044786          273 AERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFLYLMKASG  316 (340)
Q Consensus       273 A~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g  316 (340)
                      |.+.|++.....++..+..|...|..    .+++++|+.+|++..+.|
T Consensus       350 A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          350 AVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC
Confidence            66666666555556666666666666    566666666666666554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=2.5e-14  Score=114.88  Aligned_cols=235  Identities=9%  Similarity=-0.021  Sum_probs=144.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCc--CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch----HHH
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPL--RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP----AWI  119 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~----~~~  119 (340)
                      ...+..+...+...|++++|.+.|++..+  .+...|..+...+...|++++|++.+++..+.....   .++    ..+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~---~~~~~~~~~~   81 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREM---RADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT---TCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc---ccchHHHHHH
Confidence            34566666677777777777777777663  344456666677777777777777777766653100   011    456


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhcc
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCRE  196 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~  196 (340)
                      +..+...+...|++++|...++...+...  +.       ..+.+.|++++|...++.+...   +...+..+...+...
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--~~-------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHR--TA-------DILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC--CH-------HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCc--hh-------HHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHh
Confidence            66666666667777777777666666542  21       2344555566666666655432   233455555555555


Q ss_pred             CchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHH
Q 044786          197 GHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERV  276 (340)
Q Consensus       197 ~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  276 (340)
                      |++++|...+++..+.                                    . +.+..++..+...|.+.|++++|.+.
T Consensus       153 ~~~~~A~~~~~~a~~~------------------------------------~-~~~~~~~~~l~~~~~~~~~~~~A~~~  195 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKR------------------------------------A-PEDARGYSNRAAALAKLMSFPEAIAD  195 (258)
T ss_dssp             TCHHHHHHHHHHHHHH------------------------------------C-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhc------------------------------------C-cccHHHHHHHHHHHHHhCCHHHHHHH
Confidence            6666665555555442                                    1 22445666777777788888888888


Q ss_pred             HHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC----CccchhHHHHHHH
Q 044786          277 FELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASG----IQIQESLINDLRI  329 (340)
Q Consensus       277 ~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~~~~~t~~~ll~  329 (340)
                      |++...  +.+...|..+...|.+.|++++|.+.+++..+..    ..|+.......+.
T Consensus       196 ~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~  254 (258)
T 3uq3_A          196 CNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYY  254 (258)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHH
Confidence            877765  2356777788888888888888888888776553    2255444444443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.64  E-value=4.9e-14  Score=113.18  Aligned_cols=215  Identities=11%  Similarity=0.037  Sum_probs=174.3

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-C-------ccc
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-D-------FNS   79 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~-------~~~   79 (340)
                      ...|..+...+...|++++|.+.|+...+. .  .+...+..+...+...|++++|.+.|++..+  | +       ..+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~-~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWEL-H--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-S--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh-h--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            457788889999999999999999999998 5  7889999999999999999999999998773  2 2       467


Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      |..+...+...|++++|.+.|++....       .|+.       ..+...|++++|...++.+...... +...+..+.
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~-------~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~  146 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTE-------HRTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEG  146 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-------CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc-------Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHH
Confidence            888999999999999999999999988       4553       3466678999999999998887533 567888899


Q ss_pred             HHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhc
Q 044786          160 NFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  236 (340)
                      ..+...|++++|...|++..+   .+..+|..+...|...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus       147 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          147 KEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHH
Confidence            999999999999999999763   367789999999999999999999999987742 1224445555555555555544


Q ss_pred             hHHHHHHH
Q 044786          237 CGRQMHAN  244 (340)
Q Consensus       237 ~~~~~~~~  244 (340)
                       +...++.
T Consensus       226 -A~~~~~~  232 (258)
T 3uq3_A          226 -ALETLDA  232 (258)
T ss_dssp             -HHHHHHH
T ss_pred             -HHHHHHH
Confidence             4444333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.64  E-value=2.4e-12  Score=113.62  Aligned_cols=287  Identities=8%  Similarity=-0.064  Sum_probs=216.8

Q ss_pred             cchhHHHHHHhhh----ccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHh----cCChhHHHHHHhhcCc-CCcccH
Q 044786           10 TDMYTCLIKECTF----QKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVS----CGQLDTARQLFDEMPL-RDFNSW   80 (340)
Q Consensus        10 ~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~-~~~~~~   80 (340)
                      +..+..+-..|..    .+++++|.+.|+..... |   +...+..|...|..    .++.++|.+.|++..+ .+...+
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~  186 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQ-G---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSC  186 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            3444455555555    56777777777777665 4   45566666666665    6777788877776653 355566


Q ss_pred             HHHHHHHHc----ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh----ccchhhHHHHHHHHHHcCCCCch
Q 044786           81 AVMIVGYVD----VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC----TMNMELGKQVHGLLFKLGSSRNI  152 (340)
Q Consensus        81 ~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  152 (340)
                      ..+...|..    .+++++|.+.|++..+.+        +...+..+...+..    .+++++|.++|+...+.+   +.
T Consensus       187 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~--------~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  255 (490)
T 2xm6_A          187 NQLGYMYSRGLGVERNDAISAQWYRKSATSG--------DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NS  255 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CH
T ss_pred             HHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            777777776    788888888888887663        34456666666665    789999999999988875   45


Q ss_pred             hHHHHHHHHHHh----hcCHHHHHHHHHHcccC-ChhhHHHHHHHHhcc-----CchhHHHHHHHHHhhcccCCChhhHH
Q 044786          153 SLTGSLINFYGK----FRCLEDADFVFSQLKRH-NTVVWTAKIVNNCRE-----GHFHQVFNDFKEMGRERIKKNSYTFS  222 (340)
Q Consensus       153 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~t~~  222 (340)
                      ..+..+...|..    .++.++|.+.|++..+. +...+..+...|...     +++++|+..|++..+.|   +...+.
T Consensus       256 ~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~  332 (490)
T 2xm6_A          256 IAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQA  332 (490)
T ss_dssp             HHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHH
Confidence            667777777877    89999999999998755 566777888888877     89999999999998865   334455


Q ss_pred             HHHHhcccCC---chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHhhcCCcHHHHHHHHHH
Q 044786          223 SVLKACGGVD---DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGK----CRLLRDAERVFELIVDKKNIASWNAMLVG  295 (340)
Q Consensus       223 ~ll~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~li~~  295 (340)
                      .+-..|...|   +.++ +..+++...+.+   ++..+..|-..|..    .+++++|.+.|++.....+...+..|...
T Consensus       333 ~lg~~y~~~g~~~~~~~-A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~  408 (490)
T 2xm6_A          333 NLGAIYFRLGSEEEHKK-AVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEI  408 (490)
T ss_dssp             HHHHHHHHSCCHHHHHH-HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcccHHH-HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            5555555444   5545 677777776654   56778888888888    89999999999999887888899999999


Q ss_pred             HHH----cCchHHHHHHHHHHHHcCCc
Q 044786          296 YIR----NGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       296 ~~~----~~~~~~a~~~~~~m~~~g~~  318 (340)
                      |.+    .+++++|...|++..+.|..
T Consensus       409 y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          409 YYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            998    89999999999999988744

>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=99.64  E-value=7.5e-14  Score=111.91  Aligned_cols=196  Identities=10%  Similarity=-0.067  Sum_probs=124.0

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      +..|..+...+...|++++|.+.|+.+...  .+.+...+..+...+.+.|++++|.+.|++..+   .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI--DPSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHH
Confidence            344556666666777777777777776665  233566666666777777777777777766542   244456666666


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      +...|++++|.+.++++...  +.  .+.+...+..+...+...|++++|.+.++...+.... +...+..+...|...|
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~--~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g  189 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQD--TL--YPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKER  189 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTC--TT--CTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTT
T ss_pred             HHHHhHHHHHHHHHHHHHhC--cc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcC
Confidence            77777777777777776651  11  0234556666666677777777777777766665432 4556666666777777


Q ss_pred             CHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          167 CLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       167 ~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      ++++|...+++..+.   +...+..+...+...|++++|...++++.+.
T Consensus       190 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          190 EYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             CHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            777777777665432   4445666666666677777777777766653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.64  E-value=9.7e-14  Score=109.01  Aligned_cols=206  Identities=11%  Similarity=-0.076  Sum_probs=146.2

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      ++..+..+...+...|++++|.+.++.+.+.  .+.+...+..+...+...|++++|.+.|++...   .+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS--DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            4556777777888888888888888888776  344577777788888888888888888877652   34556777777


Q ss_pred             HHHcc-cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           86 GYVDV-ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        86 ~~~~~-g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      .+... |++++|.+.++++.+.  +.  .+.+...+..+...+...|++++|...++.+.+.... +...+..+...+.+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~--~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~  159 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALAD--PT--YPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKML  159 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTS--TT--CSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcC--cC--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHH
Confidence            88888 8888888888887762  11  1334567777777888888888888888877776533 46677777777888


Q ss_pred             hcCHHHHHHHHHHccc----CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHH
Q 044786          165 FRCLEDADFVFSQLKR----HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSS  223 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  223 (340)
                      .|++++|...+++..+    .+...+..+...+...|+.++|..+++.+.+.  .|+...+..
T Consensus       160 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  220 (225)
T 2vq2_A          160 AGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQT  220 (225)
T ss_dssp             HTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            8888888877777642    34556666667777777788777777777653  355444433

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.63  E-value=2.7e-12  Score=114.51  Aligned_cols=319  Identities=11%  Similarity=0.072  Sum_probs=191.3

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CCcccHHHHH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RDFNSWAVMI   84 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li   84 (340)
                      |-+...|..++.. .+.|++++|..+|+.+...  .+.+...|...+..+.+.|++++|.++|++...  |+...|...+
T Consensus        10 P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~--~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQ--FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            3456678888874 6789999999999999876  566788899999999999999999999998874  4544555444


Q ss_pred             HHH-HcccChhHHHH----HHHHHHHhhcCCccccchHHHHHHHHHHhhh---------ccchhhHHHHHHH--------
Q 044786           85 VGY-VDVADYQECIT----LFAEMMKRKKGHMLLVFPAWIIVCVLKACVC---------TMNMELGKQVHGL--------  142 (340)
Q Consensus        85 ~~~-~~~g~~~~a~~----~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~--------  142 (340)
                      ... ...|+.++|.+    +|++....- |.+  .++...|...+....+         .|+++.|..+|+.        
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~-g~~--~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~  163 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKI-GME--IMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMIN  163 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHT-TTS--TTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTT
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHC-CCC--cccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhh
Confidence            322 22344444333    343333221 110  1112222222222111         2222222222222        


Q ss_pred             --------------------------------------------------------------------------------
Q 044786          143 --------------------------------------------------------------------------------  142 (340)
Q Consensus       143 --------------------------------------------------------------------------------  142 (340)
                                                                                                      
T Consensus       164 ~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~  243 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSN  243 (530)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcC
Confidence                                                                                            


Q ss_pred             --------------------HHHcCCCCchhHHHHHHHHHHh-------hcCHH-------HHHHHHHHccc---C-Chh
Q 044786          143 --------------------LFKLGSSRNISLTGSLINFYGK-------FRCLE-------DADFVFSQLKR---H-NTV  184 (340)
Q Consensus       143 --------------------~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~---~-~~~  184 (340)
                                          ..... +.+...|......+.+       .|+++       +|..+|++..+   | +..
T Consensus       244 ~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~  322 (530)
T 2ooe_A          244 PLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNML  322 (530)
T ss_dssp             SSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHH
T ss_pred             CccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHH
Confidence                                22211 1123333444444443       46665       77777777653   3 456


Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHHhhcccCCCh--hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNS--YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVD  262 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~  262 (340)
                      .|..++..+.+.|++++|..+|++..+.  .|+.  ..|......+.+.|+.++ +..+++...+.. +.+...|.....
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~-A~~~~~~Al~~~-~~~~~~~~~~a~  398 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKS-GRMIFKKAREDA-RTRHHVYVTAAL  398 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHTCT-TCCTHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHH-HHHHHHHHHhcc-CCchHHHHHHHH
Confidence            6777777777788888888888887763  4542  356666666667777755 666766665532 112233322221


Q ss_pred             H-HhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCC-ccc--hhHHHHHHHHhhhcCc
Q 044786          263 M-YGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGI-QIQ--ESLINDLRIACSSISA  336 (340)
Q Consensus       263 ~-~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~--~~t~~~ll~a~~~~g~  336 (340)
                      . +...|+.++|..+|+....  +.++..|..++..+.+.|+.++|..+|++....+- .|+  ...|...+......|+
T Consensus       399 ~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          399 MEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             HHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            1 2357888888888887765  23677888888888888999999999988877642 232  3356666665555564

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=1.4e-14  Score=117.74  Aligned_cols=246  Identities=11%  Similarity=0.006  Sum_probs=132.8

Q ss_pred             HhhhccchhhHHHHHHHHHhhcCC-C--CCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccC
Q 044786           19 ECTFQKDSAGAFELLNHIRKRVNI-K--PTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        19 ~~~~~~~~~~a~~~~~~m~~~~g~-~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~   92 (340)
                      .....|++++|++.++.+.+. .. .  .+..++..+...+...|++++|.+.|++..+   .+..+|..+...+...|+
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~   92 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILAS-RALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGN   92 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTC
T ss_pred             ccCccchHHHHHHHHHHHHhc-ccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccC
Confidence            344567777777777777765 21 1  1345666666777777777777777766552   244556666666777777


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDAD  172 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (340)
                      +++|.+.|++..+..      +.+..++..+...+...|++++|...++.+.+...  +.......+..+...|++++|.
T Consensus        93 ~~~A~~~~~~al~~~------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~--~~~~~~~~~~~~~~~~~~~~A~  164 (275)
T 1xnf_A           93 FDAAYEAFDSVLELD------PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP--NDPFRSLWLYLAEQKLDEKQAK  164 (275)
T ss_dssp             HHHHHHHHHHHHHHC------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHCHHHHH
T ss_pred             HHHHHHHHHHHHhcC------ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC--CChHHHHHHHHHHHhcCHHHHH
Confidence            777777777766653      23455666666666666666666666666665432  2222222223333444444444


Q ss_pred             HHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhC
Q 044786          173 FVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIG  249 (340)
Q Consensus       173 ~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~  249 (340)
                      ..+++...   ++...+ .++..+...++.++|...+++.....  |+.                               
T Consensus       165 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~-------------------------------  210 (275)
T 1xnf_A          165 EVLKQHFEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDN--TSL-------------------------------  210 (275)
T ss_dssp             HHHHHHHHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSH--HHH-------------------------------
T ss_pred             HHHHHHHhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhccc--ccc-------------------------------
Confidence            44433321   111111 13333333333344444433332210  000                               


Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCcHHHHHHHHHHHHHcCchHHHHHHH
Q 044786          250 LESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKNIASWNAMLVGYIRNGLYVEATKFL  309 (340)
Q Consensus       250 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~  309 (340)
                      .+.+..++..+...|.+.|++++|...|++... .|+  .+.....++...|++++|++.+
T Consensus       211 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          211 AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH--NFVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT--TCHHHHHHHHHHHHHHHC----
T ss_pred             cccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCch--hHHHHHHHHHHHHHHHhhHHHH
Confidence            001245667778888888888888888888765 232  2333355667777888777665

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.61  E-value=4.7e-14  Score=121.11  Aligned_cols=292  Identities=10%  Similarity=-0.045  Sum_probs=209.1

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcCc-----C---
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT----LLFLNRLLLMHVSCGQLDTARQLFDEMPL-----R---   75 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~---   75 (340)
                      .....+......+...|++++|...|+..... . +.+    ..++..+...+...|++++|...|++...     .   
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQV-G-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            34455667778888999999999999999987 3 223    36788888999999999999999987641     1   


Q ss_pred             -CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc--------------------hh
Q 044786           76 -DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN--------------------ME  134 (340)
Q Consensus        76 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--------------------~~  134 (340)
                       ...++..+...+...|++++|...+++..+.............++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             233677888999999999999999999887631110001224588888999999999                    99


Q ss_pred             hHHHHHHHHHHc----CCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----C----hhhHHHHHHHHhccCchh
Q 044786          135 LGKQVHGLLFKL----GSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH-----N----TVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       135 ~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~----~~~~~~li~~~~~~~~~~  200 (340)
                      +|...++...+.    +..+ ...++..+...|...|++++|...+++..+.     +    ..++..+...|...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999998876543    2111 2346778888999999999999998886531     1    236888888999999999


Q ss_pred             HHHHHHHHHhhcccC-CC----hhhHHHHHHhcccCCchhchHHHHHHHHHHh----CCCc-cHHHHHHHHHHHhccCCH
Q 044786          201 QVFNDFKEMGRERIK-KN----SYTFSSVLKACGGVDDDGNCGRQMHANIVKI----GLES-DEYVQCGLVDMYGKCRLL  270 (340)
Q Consensus       201 ~a~~~~~~m~~~~~~-p~----~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~  270 (340)
                      +|...+++..+.... ++    ..++..+...+...|++++ +...++.....    +-.+ ...++..+...|.+.|++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~-A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  323 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEK-AIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNH  323 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHH-HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            999999887653111 11    3456677777888888866 55555444332    1111 255677788888888888


Q ss_pred             HHHHHHHHHhhcC--------CcHHHHHHHHHHHHHcCch
Q 044786          271 RDAERVFELIVDK--------KNIASWNAMLVGYIRNGLY  302 (340)
Q Consensus       271 ~~A~~~~~~~~~~--------~~~~~~~~li~~~~~~~~~  302 (340)
                      ++|.+.+++...-        ....++..+...+...|+.
T Consensus       324 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          324 DQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            8888888776541        1244566666677766665

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.61  E-value=4.1e-14  Score=112.67  Aligned_cols=197  Identities=10%  Similarity=-0.005  Sum_probs=145.8

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVM   83 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l   83 (340)
                      ..++..|..+...+...|++++|.+.|+.+.+.  .+.+...+..+...+.+.|++++|.+.|++..+   .+..++..+
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l   97 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEE--NKEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGA   97 (243)
T ss_dssp             ----------------------CCTTHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHH
Confidence            345567777888888999999999999998875  445688888888999999999999999988763   355678888


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      ...+...|++++|.+.++++.+..      +.+...+..+...+...|++++|...++.+.+.... +...+..+...+.
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~  170 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAG------MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLA  170 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHT------CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHH
Confidence            888999999999999999998874      456778888888999999999999999988877543 6678888888999


Q ss_pred             hhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          164 KFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       164 ~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      +.|++++|...|++..+   .+..++..+...|...|++++|...+++..+.
T Consensus       171 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          171 NEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            99999999999988753   35667888888999999999999999988774

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.61  E-value=7.5e-13  Score=107.30  Aligned_cols=177  Identities=11%  Similarity=0.022  Sum_probs=101.6

Q ss_pred             HHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHh
Q 044786           51 RLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKAC  127 (340)
Q Consensus        51 ~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~  127 (340)
                      .....+...|++++|.+.|++..+   .+...+..+...+...|++++|++.+++..+..  . ........|..+...+
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~-~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--N-ATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--C-TTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--C-chhHHHHHHHHHHHHH
Confidence            344555566666666666665542   234456666666666666666666666666531  1 0022233466666666


Q ss_pred             hhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHH
Q 044786          128 VCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFN  204 (340)
Q Consensus       128 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~  204 (340)
                      ...|++++|...++...+.... +..++..+...|...|++++|...|++..+.   +...|..+...+...+++++|..
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            6667777777776666665433 4456667777777777777777777776532   44455555523333447777777


Q ss_pred             HHHHHhhcccCCC-hhhHHHHHHhcccCCc
Q 044786          205 DFKEMGRERIKKN-SYTFSSVLKACGGVDD  233 (340)
Q Consensus       205 ~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~  233 (340)
                      .|++..+.  .|+ ...+..+...+...++
T Consensus       164 ~~~~a~~~--~p~~~~~~~~~~~~~~~~~~  191 (272)
T 3u4t_A          164 SFVKVLEL--KPNIYIGYLWRARANAAQDP  191 (272)
T ss_dssp             HHHHHHHH--STTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHh--CccchHHHHHHHHHHHHcCc
Confidence            77777664  333 3334444444444343

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.61  E-value=6.8e-14  Score=109.65  Aligned_cols=57  Identities=16%  Similarity=0.180  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHH
Q 044786          255 YVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYL  311 (340)
Q Consensus       255 ~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~  311 (340)
                      ..+..+..+|...|++++|...|++...  +.+...+..+...+.+.|++++|.+.|++
T Consensus       152 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          152 EIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC-------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            3333444444444444444444444433  12334444444444444445444444443

>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=99.60  E-value=1.3e-12  Score=106.19  Aligned_cols=221  Identities=9%  Similarity=-0.070  Sum_probs=141.8

Q ss_pred             ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh----ccchhhHHHHHHHHHHcCCCCchh
Q 044786           78 NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC----TMNMELGKQVHGLLFKLGSSRNIS  153 (340)
Q Consensus        78 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  153 (340)
                      .++..+...+...|++++|++.|++..+.+        +...+..+...+..    .+++++|...|+...+.+   +..
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~--------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~   75 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDLK--------ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSN   75 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHH
Confidence            344455555555666666666666655531        22344555555555    666666666666665554   445


Q ss_pred             HHHHHHHHHHh----hcCHHHHHHHHHHcccC-ChhhHHHHHHHHhc----cCchhHHHHHHHHHhhcccCCChhhHHHH
Q 044786          154 LTGSLINFYGK----FRCLEDADFVFSQLKRH-NTVVWTAKIVNNCR----EGHFHQVFNDFKEMGRERIKKNSYTFSSV  224 (340)
Q Consensus       154 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  224 (340)
                      .+..+...|..    .+++++|...|++..+. +...+..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        76 a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           76 GCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            55556666666    66666666666665433 44556666666666    667777777777666644   33344444


Q ss_pred             HHhccc----CCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHhhcCCcHHHHHHHHHHH
Q 044786          225 LKACGG----VDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGK----CRLLRDAERVFELIVDKKNIASWNAMLVGY  296 (340)
Q Consensus       225 l~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~li~~~  296 (340)
                      -..+..    .+++++ +...++...+.+   +...+..+...|..    .+++++|.+.|++.....+...+..+...|
T Consensus       153 g~~~~~~~~~~~~~~~-A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~  228 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKK-ALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQ  228 (273)
T ss_dssp             HHHHHHTSSSCCCHHH-HHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHH-HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            444444    666655 555555555543   34566677777877    899999999998887766677888888888


Q ss_pred             HH----cCchHHHHHHHHHHHHcC
Q 044786          297 IR----NGLYVEATKFLYLMKASG  316 (340)
Q Consensus       297 ~~----~~~~~~a~~~~~~m~~~g  316 (340)
                      .+    .+++++|.+.|++..+.|
T Consensus       229 ~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          229 YNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HcCCCcccCHHHHHHHHHHHHHcC
Confidence            88    899999999999988876

>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=99.60  E-value=7.6e-13  Score=106.01  Aligned_cols=206  Identities=10%  Similarity=0.053  Sum_probs=115.7

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .|..+...+...|++++|.+.|+++.+..      +.+...+..+...+...|++++|.+.++.+.+.... +...    
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~------~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~----  107 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID------PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARV----  107 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH----
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC------CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHH----
Confidence            34455555555555555555555555542      233444455555555555555555555554444321 3334    


Q ss_pred             HHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCchhch
Q 044786          159 INFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDDDGNC  237 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~~  237 (340)
                                                 +..+...|...|++++|..+++++.+.+..| +...+..+...+...|++++ 
T Consensus       108 ---------------------------~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~-  159 (252)
T 2ho1_A          108 ---------------------------LNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQ-  159 (252)
T ss_dssp             ---------------------------HHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHH-
T ss_pred             ---------------------------HHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHH-
Confidence                                       4444444445555555555555544422223 22334444444555555544 


Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +...++...+.. +.+...+..+...|.+.|++++|...++....  +.+...+..+...+.+.|++++|.+.++++.+.
T Consensus       160 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          160 AKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            444444433332 22456667778888888888888888888765  246667788888888889999998888888765


Q ss_pred             CCccchhHHHH
Q 044786          316 GIQIQESLIND  326 (340)
Q Consensus       316 g~~~~~~t~~~  326 (340)
                        .|+...+..
T Consensus       239 --~p~~~~~~~  247 (252)
T 2ho1_A          239 --YPGSLEYQE  247 (252)
T ss_dssp             --CTTSHHHHH
T ss_pred             --CCCCHHHHH
Confidence              344444433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.59  E-value=1.3e-13  Score=118.71  Aligned_cols=269  Identities=10%  Similarity=-0.054  Sum_probs=182.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcCc--C-Cc----ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHH
Q 044786           47 LFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DF----NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        47 ~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      ..+..+...+...|++++|.+.|++..+  | +.    ..|..+...+...|++++|++.+++..+.............+
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3444555667777888888888877662  2 22    256677777778888888888888776552111101334557


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcC----C-CCchhHHHHHHHHHHhhcC-----------------HHHHHHHHHH
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLG----S-SRNISLTGSLINFYGKFRC-----------------LEDADFVFSQ  177 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~  177 (340)
                      +..+...+...|++++|...+++..+..    - .....++..+...|...|+                 +++|.+.+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            7777778888888888888877665441    1 1134466777778888888                 7777777776


Q ss_pred             cccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccC-CC----hhhHHHHHHhcccCCchhchHHHHHH
Q 044786          178 LKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIK-KN----SYTFSSVLKACGGVDDDGNCGRQMHA  243 (340)
Q Consensus       178 ~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~t~~~ll~~~~~~~~~~~~~~~~~~  243 (340)
                      ..+-         ...++..+...|...|++++|...+++..+.... ++    ...+..+...+...|++++ +...++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~-A~~~~~  287 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFED-AAEHYK  287 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHH-HHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHH-HHHHHH
Confidence            5321         2346777778888888888888888887653110 11    2256777777888888866 555555


Q ss_pred             HHHHhC----CC-ccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC----C----cHHHHHHHHHHHHHcCchHHHHHHHH
Q 044786          244 NIVKIG----LE-SDEYVQCGLVDMYGKCRLLRDAERVFELIVDK----K----NIASWNAMLVGYIRNGLYVEATKFLY  310 (340)
Q Consensus       244 ~~~~~~----~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~----~~~~~~~li~~~~~~~~~~~a~~~~~  310 (340)
                      ......    .. ....++..+...|...|++++|.+.+++...-    +    ...++..+...|.+.|++++|.+.++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            443321    11 12567788889999999999999999887651    1    24477888899999999999999999


Q ss_pred             HHHHcC
Q 044786          311 LMKASG  316 (340)
Q Consensus       311 ~m~~~g  316 (340)
                      +.....
T Consensus       368 ~al~~~  373 (411)
T 4a1s_A          368 QHLQLA  373 (411)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            886553

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.58  E-value=1.2e-12  Score=106.16  Aligned_cols=220  Identities=9%  Similarity=-0.032  Sum_probs=166.5

Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCH
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      ..|++++|++.|+++.+.. .. ..+.+..++..+...+...|++++|...++...+.... +..++..+...|...|++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~-~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASR-AL-TDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSS-CC-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCH
T ss_pred             ccchHHHHHHHHHHHHhcc-cc-cCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCH
Confidence            4578888888888888752 11 00235667888888888888999999888888877543 677888888888899999


Q ss_pred             HHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          169 EDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       169 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      ++|...|++..+   .+..++..+...|...|++++|...|+++.+.  .|+.......+..+...|++++ +...+...
T Consensus        94 ~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~-A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQ-AKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHH-HHHHHHHH
Confidence            999998888763   35677888888999999999999999998874  4555444444555566678766 66666555


Q ss_pred             HHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C-----cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC
Q 044786          246 VKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K-----NIASWNAMLVGYIRNGLYVEATKFLYLMKASG  316 (340)
Q Consensus       246 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  316 (340)
                      .... +++...+ .+...+...++.++|.+.++..... |     +...|..+...|.+.|++++|...|++.....
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            5442 3444444 4777788888899999999988763 2     25788899999999999999999999998664

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.58  E-value=8.4e-13  Score=103.61  Aligned_cols=71  Identities=11%  Similarity=-0.110  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhhc--C-CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHHH
Q 044786          254 EYVQCGLVDMYGKCRLLRDAERVFELIVD--K-KNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLIND  326 (340)
Q Consensus       254 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~  326 (340)
                      ...+..+...|.+.|++++|.+.+++...  + .+...+..+...+...|+.++|..+++.+...  .|+...+..
T Consensus       147 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  220 (225)
T 2vq2_A          147 PPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQT  220 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             chHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            44455566666666666666666666544  2 34555556666666666666666666666543  344444333

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.57  E-value=5.8e-13  Score=107.96  Aligned_cols=236  Identities=10%  Similarity=-0.063  Sum_probs=183.3

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc--hhH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN--ISL  154 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~  154 (340)
                      ...+......+...|++++|++.|++..+..      +.+...+..+...+...|++++|...++...+.+..++  ...
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~------p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~   76 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK------YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSAD   76 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT------CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHH
Confidence            3455667788899999999999999999884      34455888899999999999999999999998542222  234


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhccc
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGG  230 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~  230 (340)
                      |..+...|...|++++|.+.|++..+   .+..+|..+...|...|++++|+..|++..+.  .|+ ...+..+...+..
T Consensus        77 ~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~  154 (272)
T 3u4t_A           77 FEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYY  154 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHH
Confidence            88999999999999999999998764   36678999999999999999999999999875  454 4555555513333


Q ss_pred             CCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCC---HHHHHHHHHHhhc----CCc------HHHHHHHHHHHH
Q 044786          231 VDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRL---LRDAERVFELIVD----KKN------IASWNAMLVGYI  297 (340)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~A~~~~~~~~~----~~~------~~~~~~li~~~~  297 (340)
                      .+++++ +...++...+.. +.+...+..+...+...|+   +++|...+++...    .|+      ..+|..+...|.
T Consensus       155 ~~~~~~-A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  232 (272)
T 3u4t_A          155 NKEYVK-ADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYT  232 (272)
T ss_dssp             TTCHHH-HHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHH-HHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHH
Confidence            447766 777777777653 3356777788888888888   7778888877664    244      257888889999


Q ss_pred             HcCchHHHHHHHHHHHHcCCccchhHH
Q 044786          298 RNGLYVEATKFLYLMKASGIQIQESLI  324 (340)
Q Consensus       298 ~~~~~~~a~~~~~~m~~~g~~~~~~t~  324 (340)
                      +.|++++|.+.|++..+..  |+....
T Consensus       233 ~~~~~~~A~~~~~~al~~~--p~~~~a  257 (272)
T 3u4t_A          233 INRDKVKADAAWKNILALD--PTNKKA  257 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HcCCHHHHHHHHHHHHhcC--ccHHHH
Confidence            9999999999999998764  554433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.57  E-value=1.1e-11  Score=108.70  Aligned_cols=298  Identities=10%  Similarity=-0.059  Sum_probs=202.9

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhc-------CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-----
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRV-------NIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-----   74 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----   74 (340)
                      +.....||.+...+...|++++|++.|++..+..       ..+....+|+.+..+|...|++++|...+++..+     
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            3345678999999999999999999998876421       1223467899999999999999999999887641     


Q ss_pred             --C----CcccHHHHHHHHHc--ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHh---hhccchhhHHHHHHHH
Q 044786           75 --R----DFNSWAVMIVGYVD--VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKAC---VCTMNMELGKQVHGLL  143 (340)
Q Consensus        75 --~----~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~---~~~~~~~~a~~~~~~~  143 (340)
                        +    ...++..+..++..  .+++++|++.|++..+..      +-+...+..+..++   ...++.++|.+.++..
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~------p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~a  201 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK------PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQA  201 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHH
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence              1    12345555555554  457999999999999883      23344444444443   4456778899999988


Q ss_pred             HHcCCCCchhHHHHHHHHHHh----hcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC
Q 044786          144 FKLGSSRNISLTGSLINFYGK----FRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK  216 (340)
Q Consensus       144 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  216 (340)
                      .+.... +..++..+...+..    .+++++|.+.+++..+   .+..++..+...|...|++++|...+++..+.  .|
T Consensus       202 l~l~p~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p  278 (472)
T 4g1t_A          202 IRLNPD-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IP  278 (472)
T ss_dssp             HHHCSS-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--ST
T ss_pred             hhcCCc-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CC
Confidence            887643 45555555544443    4678899999988653   36678899999999999999999999999875  45


Q ss_pred             C-hhhHHHHHHhcccC-------------------CchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHH
Q 044786          217 N-SYTFSSVLKACGGV-------------------DDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERV  276 (340)
Q Consensus       217 ~-~~t~~~ll~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  276 (340)
                      + ..++..+-..|...                   +..++ +...++...... +.+..++..+...|.+.|++++|.+.
T Consensus       279 ~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~-A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~  356 (472)
T 4g1t_A          279 NNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGH-AVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYY  356 (472)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHH-HHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHH-HHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHH
Confidence            4 34454444333211                   11112 334444444432 34566788899999999999999999


Q ss_pred             HHHhhc-CCcHH----HHHHHHH-HHHHcCchHHHHHHHHHHHHc
Q 044786          277 FELIVD-KKNIA----SWNAMLV-GYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       277 ~~~~~~-~~~~~----~~~~li~-~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      |++... .|+..    .+..+.. .+...|++++|+..|++....
T Consensus       357 ~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i  401 (472)
T 4g1t_A          357 FQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI  401 (472)
T ss_dssp             HHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS
T ss_pred             HHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            998865 33322    2223322 345779999999999887654

>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=99.57  E-value=1.5e-12  Score=110.51  Aligned_cols=240  Identities=11%  Similarity=0.058  Sum_probs=154.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccC-hhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVAD-YQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      ...|+.+..++.+.|++++|++.|++...   .+..+|+.+...+...|+ +++|+..|++.+...      +-+...|.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~------P~~~~a~~  170 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ------PKNYQVWH  170 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC------TTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC------CCCHHHHH
Confidence            35666677777777888888888877662   244567777777777775 888888888887774      44566777


Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhc-cC
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCR-EG  197 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~-~~  197 (340)
                      .+..++...|++++|...|+.+.+.... +...|..+..++.+.|++++|...|+++.+.   +...|+.+..++.. .|
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~  249 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTG  249 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcC
Confidence            7777777788888888888877777644 6667777777777777777777777776532   55667777777777 55


Q ss_pred             chhHH-----HHHHHHHhhcccCCC-hhhHHHHHHhcccCC--chhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccC-
Q 044786          198 HFHQV-----FNDFKEMGRERIKKN-SYTFSSVLKACGGVD--DDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCR-  268 (340)
Q Consensus       198 ~~~~a-----~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-  268 (340)
                      ..++|     +..|++....  .|+ ...|..+...+...|  +..+ +......+  ..-+.+...+..+...|.+.| 
T Consensus       250 ~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~-a~~~~~~~--~~~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPN-LLNQLLDL--QPSHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHH-HHHHHHHH--TTTCCCHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHH-HHHHHHHh--ccCCCCHHHHHHHHHHHHHHhc
Confidence            54666     3666666653  343 445555555566655  3444 33444333  222335566666777776653 


Q ss_pred             --------CHHHHHHHHHHh-hc-CC-cHHHHHHHHHHHH
Q 044786          269 --------LLRDAERVFELI-VD-KK-NIASWNAMLVGYI  297 (340)
Q Consensus       269 --------~~~~A~~~~~~~-~~-~~-~~~~~~~li~~~~  297 (340)
                              .+++|.++++++ .. .| ....|..+...+.
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence                    246777777776 32 33 3344554544443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=1.1e-12  Score=112.50  Aligned_cols=294  Identities=10%  Similarity=-0.050  Sum_probs=217.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-C----cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccc
Q 044786           43 KPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-D----FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVF  115 (340)
Q Consensus        43 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  115 (340)
                      .+....+......+...|++++|...|++..+  | +    ..+|..+...+...|++++|...+++...........+.
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            44566777788889999999999999998763  3 2    236778889999999999999999998765211111123


Q ss_pred             hHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-C----chhHHHHHHHHHHhhcC--------------------HHH
Q 044786          116 PAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-R----NISLTGSLINFYGKFRC--------------------LED  170 (340)
Q Consensus       116 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~--------------------~~~  170 (340)
                      ...++..+...+...|++++|...++...+.... +    ...++..+...|...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            4568888999999999999999999887654211 1    24478888999999999                    999


Q ss_pred             HHHHHHHcccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhhccc-CCC----hhhHHHHHHhcccCCchhc
Q 044786          171 ADFVFSQLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERI-KKN----SYTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       171 a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~t~~~ll~~~~~~~~~~~  236 (340)
                      |...+++..+-         ...++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            99988875421         234688889999999999999999999865311 122    2367788888999999977


Q ss_pred             hHHHHHHHHHHh----CCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhcC----C----cHHHHHHHHHHHHHcCchH
Q 044786          237 CGRQMHANIVKI----GLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVDK----K----NIASWNAMLVGYIRNGLYV  303 (340)
Q Consensus       237 ~~~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~----~~~~~~~li~~~~~~~~~~  303 (340)
                       +...++.....    +..+ ...++..+...|...|++++|.+.+++...-    +    ...++..+...|...|+++
T Consensus       246 -A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          246 -ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             -HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             -HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence             66666554432    2111 2567888999999999999999999887651    2    2557888899999999999


Q ss_pred             HHHHHHHHHHHc----CCcc-chhHHHHHHHHhhhcCcc
Q 044786          304 EATKFLYLMKAS----GIQI-QESLINDLRIACSSISAS  337 (340)
Q Consensus       304 ~a~~~~~~m~~~----g~~~-~~~t~~~ll~a~~~~g~~  337 (340)
                      +|.+.+++..+.    |-.+ ...++..+-..+...|..
T Consensus       325 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          325 QAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            999999986544    3222 234555566666666644

>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=99.56  E-value=8.5e-12  Score=117.73  Aligned_cols=280  Identities=9%  Similarity=0.084  Sum_probs=200.7

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcC--CCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVN--IKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIV   85 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~   85 (340)
                      .+++--...+++|...|.+.+|+++++.+... +  +.-+....+.++....+. +..+..++.++...-+   ...+..
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~-~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~ 1057 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLD-NSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIAN 1057 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcC-CCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHH
Confidence            34555677888888999999999999998844 2  123456667777666666 5566666655555222   445777


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      .+...|.+++|..+|++...          .....+.++.   ..+++++|.++.++.      -+..+|..+..++...
T Consensus      1058 Iai~lglyEEAf~IYkKa~~----------~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~ 1118 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFDV----------NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQK 1118 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcCC----------HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhC
Confidence            78889999999999998631          2222233332   667888888887754      2467888999999999


Q ss_pred             cCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          166 RCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      |++++|...|.+.  .|...|..++.++.+.|++++|.+++....+..  ++......+..+|++.+++++ ...+.   
T Consensus      1119 G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rlee-le~fI--- 1190 (1630)
T 1xi4_A         1119 GMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAE-LEEFI--- 1190 (1630)
T ss_pred             CCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHH-HHHHH---
Confidence            9999999999765  567778889999999999999999998776653  333333358888888887753 33332   


Q ss_pred             HHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHHH
Q 044786          246 VKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLIN  325 (340)
Q Consensus       246 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~  325 (340)
                       .   .++...|..+...|...|++++|..+|...      ..|..+...|++.|++++|.+.+++-      .+..+|.
T Consensus      1191 -~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWk 1254 (1630)
T 1xi4_A         1191 -N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWK 1254 (1630)
T ss_pred             -h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHH
Confidence             1   445566777888888999999999999886      38888889999999999998888766      2445665


Q ss_pred             HHHHHhhhcC
Q 044786          326 DLRIACSSIS  335 (340)
Q Consensus       326 ~ll~a~~~~g  335 (340)
                      .+-.+|...|
T Consensus      1255 ev~~acve~~ 1264 (1630)
T 1xi4_A         1255 EVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHhhhh
Confidence            5555554433

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.56  E-value=4.3e-13  Score=111.79  Aligned_cols=272  Identities=10%  Similarity=-0.055  Sum_probs=186.7

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcCc-----C----Cc
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT----LLFLNRLLLMHVSCGQLDTARQLFDEMPL-----R----DF   77 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~----~~   77 (340)
                      ..+......+...|++++|...|+.+.+. . +.+    ...+..+...+...|++++|.+.+++...     +    ..
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQV-G-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhh-C-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            34555667778899999999999999987 3 223    46788888999999999999999887652     1    23


Q ss_pred             ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc--------------------hhhHH
Q 044786           78 NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN--------------------MELGK  137 (340)
Q Consensus        78 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--------------------~~~a~  137 (340)
                      .++..+...+...|++++|...+++..+.............++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            3677888889999999999999998876531111011224477788888888888                    88888


Q ss_pred             HHHHHHHHc----CCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---------ChhhHHHHHHHHhccCchhHHH
Q 044786          138 QVHGLLFKL----GSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH---------NTVVWTAKIVNNCREGHFHQVF  203 (340)
Q Consensus       138 ~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~  203 (340)
                      +.++...+.    +..+ ...++..+...|...|++++|...+++..+.         ...++..+...+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            887765432    1111 2335666777777777777777777765421         1225666666777777777777


Q ss_pred             HHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC
Q 044786          204 NDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK  283 (340)
Q Consensus       204 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  283 (340)
                      ..+++.....  |+             .++.                .....++..+...|...|++++|...+++....
T Consensus       244 ~~~~~al~~~--~~-------------~~~~----------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          244 EYYKKTLLLA--RQ-------------LKDR----------------AVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHHHHHHH--HH-------------TTCH----------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--Hh-------------hcch----------------hHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            7776654311  00             0000                011345667777888888888888888877541


Q ss_pred             ----C----cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          284 ----K----NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       284 ----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                          +    ...++..+...|.+.|++++|...+++....
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          293 AQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                1    2446778888899999999999999988765

>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=99.56  E-value=1.2e-12  Score=111.04  Aligned_cols=241  Identities=10%  Similarity=0.027  Sum_probs=192.9

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHhhcCc---CCcccHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQ-LDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      ...|..+...+.+.|++++|++.++.....  -+-+...|+.+..++.+.|+ +++|+..|++...   .+...|+.+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            356777888888999999999999999987  34568899999999999997 9999999999873   35668999999


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh-
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK-  164 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  164 (340)
                      .+...|++++|+..|+++++..      +-+...|..+..++.+.|++++|...++.+++.... +...|+.+..++.+ 
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld------P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l  247 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD------AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNT  247 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHccCHHHHHHHHHHHHHhC------ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHh
Confidence            9999999999999999999985      567789999999999999999999999999998755 77889999999999 


Q ss_pred             hcCHHHH-----HHHHHHccc--C-ChhhHHHHHHHHhccC--chhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCC-
Q 044786          165 FRCLEDA-----DFVFSQLKR--H-NTVVWTAKIVNNCREG--HFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVD-  232 (340)
Q Consensus       165 ~~~~~~a-----~~~~~~~~~--~-~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~-  232 (340)
                      .|..++|     ...|++..+  | +...|+.+...+...|  ++++|++.++++ +  ..| +...+..+...+.+.| 
T Consensus       248 ~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~--~~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          248 TGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q--PSHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             TCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T--TTCCCHHHHHHHHHHHHHHHH
T ss_pred             cCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c--cCCCCHHHHHHHHHHHHHHhc
Confidence            6665777     477777643  3 6778999999999888  689999999988 3  344 4566778888887764 


Q ss_pred             -------c-hhchHHHHHHHH-HHhCCCc-cHHHHHHHHHHHh
Q 044786          233 -------D-DGNCGRQMHANI-VKIGLES-DEYVQCGLVDMYG  265 (340)
Q Consensus       233 -------~-~~~~~~~~~~~~-~~~~~~~-~~~~~~~li~~~~  265 (340)
                             + .++ +..+++.+ .+  +.| ....|..+...+.
T Consensus       325 ~~~~~~~~~~~~-A~~~~~~l~~~--~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          325 NQCDNKEDILNK-ALELCEILAKE--KDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             TTCSSHHHHHHH-HHHHHHHHHHT--TCGGGHHHHHHHHHHHH
T ss_pred             ccccchHHHHHH-HHHHHHHHHHH--hCchhHHHHHHHHHHHH
Confidence                   2 234 66777766 33  344 4455555554443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=4.6e-13  Score=115.33  Aligned_cols=268  Identities=10%  Similarity=-0.026  Sum_probs=204.0

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcCcC---------Ccc
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL----LFLNRLLLMHVSCGQLDTARQLFDEMPLR---------DFN   78 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~---------~~~   78 (340)
                      .+..+...+...|++++|.+.|+.+.+. . +.+.    ..+..+...+...|++++|.+.|++....         ...
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQA-G-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHh-c-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            3455667788999999999999999987 3 2233    57888899999999999999999887521         234


Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc-----------------hhhHHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN-----------------MELGKQVHG  141 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~  141 (340)
                      ++..+...|...|++++|.+.+++................++..+...+...|+                 +++|.+.++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            688888999999999999999999887621110013345688889999999999                 999999988


Q ss_pred             HHHHc----CCC-CchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----C----hhhHHHHHHHHhccCchhHHHHHHH
Q 044786          142 LLFKL----GSS-RNISLTGSLINFYGKFRCLEDADFVFSQLKRH-----N----TVVWTAKIVNNCREGHFHQVFNDFK  207 (340)
Q Consensus       142 ~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~----~~~~~~li~~~~~~~~~~~a~~~~~  207 (340)
                      +..+.    +.. ....++..+...|...|++++|...+++..+.     +    ..++..+...|...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            76543    211 12347788899999999999999999987532     1    2378889999999999999999999


Q ss_pred             HHhhcccC-C----ChhhHHHHHHhcccCCchhchHHHHHHHHHHh----CCC-ccHHHHHHHHHHHhccCCHHHHHHHH
Q 044786          208 EMGRERIK-K----NSYTFSSVLKACGGVDDDGNCGRQMHANIVKI----GLE-SDEYVQCGLVDMYGKCRLLRDAERVF  277 (340)
Q Consensus       208 ~m~~~~~~-p----~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~A~~~~  277 (340)
                      +....... .    ...++..+...+...|++++ +...++.....    +.. ....++..+...|.+.|++++|.+.+
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~-A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  366 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNT-AIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYA  366 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            88653211 1    14567788888999999977 66666554432    211 13457888999999999999999999


Q ss_pred             HHhhc
Q 044786          278 ELIVD  282 (340)
Q Consensus       278 ~~~~~  282 (340)
                      ++...
T Consensus       367 ~~al~  371 (411)
T 4a1s_A          367 EQHLQ  371 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.54  E-value=7.3e-13  Score=110.41  Aligned_cols=258  Identities=11%  Similarity=-0.019  Sum_probs=162.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCc--C-C----cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPL--R-D----FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII  120 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~  120 (340)
                      .+......+...|++++|...|++..+  | +    ...+..+...+...|++++|.+.+++...........+....++
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            334445667777888888888877652  2 2    23566777778888888888888877665421110012234567


Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHHcCCC-Cc----hhHHHHHHHHHHhhcC--------------------HHHHHHHH
Q 044786          121 VCVLKACVCTMNMELGKQVHGLLFKLGSS-RN----ISLTGSLINFYGKFRC--------------------LEDADFVF  175 (340)
Q Consensus       121 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~  175 (340)
                      ..+...+...|++++|...+++..+.... ++    ..++..+...|...|+                    +++|.+.+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            77777777788888888777766543211 11    2356666677777777                    66666666


Q ss_pred             HHcccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHH
Q 044786          176 SQLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIV  246 (340)
Q Consensus       176 ~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  246 (340)
                      ++..+.         ...++..+...+...|++++|...+++..+..                                .
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--------------------------------~  214 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA--------------------------------K  214 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--------------------------------H
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH--------------------------------H
Confidence            554311         12345555666666666666666665554310                                0


Q ss_pred             HhCC-CccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC----C----cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcC-
Q 044786          247 KIGL-ESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK----K----NIASWNAMLVGYIRNGLYVEATKFLYLMKASG-  316 (340)
Q Consensus       247 ~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-  316 (340)
                      ..+. .....++..+...|...|++++|.+.+++....    +    ...++..+...|...|++++|...+++..... 
T Consensus       215 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  294 (338)
T 3ro2_A          215 EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  294 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence            0010 112346677888889999999999999887641    1    25578888899999999999999999876542 


Q ss_pred             ---Cc-cchhHHHHHHHHhhhcCcc
Q 044786          317 ---IQ-IQESLINDLRIACSSISAS  337 (340)
Q Consensus       317 ---~~-~~~~t~~~ll~a~~~~g~~  337 (340)
                         -. ....++..+-..+...|+.
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~  319 (338)
T 3ro2_A          295 ELKDRIGEGRACWSLGNAYTALGNH  319 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCCh
Confidence               11 1234666666677766653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.53  E-value=1.4e-12  Score=111.35  Aligned_cols=295  Identities=9%  Similarity=-0.019  Sum_probs=207.6

Q ss_pred             hhhccchhhHHHHHHHHHhhc-CCCCC--HHHHHHHHHHH--HhcCChhHHH-----------HHHhhcCcC--Ccc---
Q 044786           20 CTFQKDSAGAFELLNHIRKRV-NIKPT--LLFLNRLLLMH--VSCGQLDTAR-----------QLFDEMPLR--DFN---   78 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~-g~~~~--~~~~~~li~~~--~~~~~~~~a~-----------~~~~~~~~~--~~~---   78 (340)
                      +.+.+++++|.++++.+.+.. ..+.|  ...|-.++..-  .-.+.++.+.           +.++.+...  +..   
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            356889999999999998752 22233  33334443321  1223334444           555555421  111   


Q ss_pred             ---cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC-----
Q 044786           79 ---SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR-----  150 (340)
Q Consensus        79 ---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----  150 (340)
                         .+......+...|++++|.+.|++..+.-...+.......++..+...+...|+++.|...++...+.-...     
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  181 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI  181 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH
Confidence               122245567889999999999999987521221112245689999999999999999999999887642111     


Q ss_pred             -chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhhc----ccCC
Q 044786          151 -NISLTGSLINFYGKFRCLEDADFVFSQLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE----RIKK  216 (340)
Q Consensus       151 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p  216 (340)
                       ...+++.+...|...|++++|...|++..+-         ...++..+...|...|++++|...+++..+.    +..|
T Consensus       182 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          182 RLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence             2357888899999999999999999887521         1247888999999999999999999998762    2223


Q ss_pred             -ChhhHHHHHHhcccCCchhchHHHHHHHHHHh----CCCccHHHHHHHHHHHhccCC---HHHHHHHHHHhhcCC-cHH
Q 044786          217 -NSYTFSSVLKACGGVDDDGNCGRQMHANIVKI----GLESDEYVQCGLVDMYGKCRL---LRDAERVFELIVDKK-NIA  287 (340)
Q Consensus       217 -~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~li~~~~~~~~---~~~A~~~~~~~~~~~-~~~  287 (340)
                       ...++..+...+...|++++ |...++.....    +-+.....+..+-..|...|+   +++|..++++....| ...
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~-A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~  340 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDK-AHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLED  340 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHH
Confidence             35668888889999999977 66665554432    222233446778888999999   889999998885444 344


Q ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          288 SWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       288 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .+..+...|...|++++|...+++..+.
T Consensus       341 ~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          341 FAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6778889999999999999999987654

>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=99.53  E-value=1.3e-11  Score=116.62  Aligned_cols=252  Identities=12%  Similarity=0.040  Sum_probs=133.6

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhH
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQE   95 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~   95 (340)
                      +...+...|.+++|.++|++...      .....+.++.   ..+++++|.++.++..  +..+|..+..++...|++++
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~------~~~A~~VLie---~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kE 1123 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV------NTSAVQVLIE---HIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKE 1123 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC------HHHHHHHHHH---HHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHH
Confidence            44455566667777666666421      1112222222   4455666666665552  34456666666666666666


Q ss_pred             HHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHH
Q 044786           96 CITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVF  175 (340)
Q Consensus        96 a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  175 (340)
                      |++.|.+.           -+...|..++.++.+.|++++|.+++....+..-  ++...+.++.+|.+.+++++.....
T Consensus      1124 AIdsYiKA-----------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~--e~~Idt~LafaYAKl~rleele~fI 1190 (1630)
T 1xi4_A         1124 AIDSYIKA-----------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFI 1190 (1630)
T ss_pred             HHHHHHhc-----------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc--cccccHHHHHHHHhhcCHHHHHHHH
Confidence            66666432           3444555566666666666666666665555442  2222223666666666665433332


Q ss_pred             HHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHH
Q 044786          176 SQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEY  255 (340)
Q Consensus       176 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  255 (340)
                         ..++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++ |....+..      .+..
T Consensus      1191 ---~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~-AIEaarKA------~n~~ 1251 (1630)
T 1xi4_A         1191 ---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQA-AVDGARKA------NSTR 1251 (1630)
T ss_pred             ---hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHH-HHHHHHHh------CCHH
Confidence               2334444555566666666666666666553         255556666666666544 33333322      2345


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          256 VQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       256 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                      +|..+-.+|...|+++.|......+.  .+...+..++.-|.+.|.+++|+.+++.-
T Consensus      1252 aWkev~~acve~~Ef~LA~~cgl~Ii--v~~deLeeli~yYe~~G~feEAI~LlE~a 1306 (1630)
T 1xi4_A         1252 TWKEVCFACVDGKEFRLAQMCGLHIV--VHADELEELINYYQDRGYFEELITMLEAA 1306 (1630)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHhhh--cCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555555555555555555544332  22333445555566666666666666444

>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=99.53  E-value=1.1e-11  Score=100.62  Aligned_cols=189  Identities=10%  Similarity=-0.050  Sum_probs=108.3

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHh----cCChhHHHHHHhhcCcC-CcccHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVS----CGQLDTARQLFDEMPLR-DFNSWAVM   83 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~l   83 (340)
                      ++.++..+...+...|++++|.+.|+...+. +   +...+..+...+..    .+++++|.+.|++..+. +..++..+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l   80 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL-K---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLL   80 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3445555666666666666666666666653 2   34555556666666    66666666666665432 44455556


Q ss_pred             HHHHHc----ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh----ccchhhHHHHHHHHHHcCCCCchhHH
Q 044786           84 IVGYVD----VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC----TMNMELGKQVHGLLFKLGSSRNISLT  155 (340)
Q Consensus        84 i~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  155 (340)
                      ...|..    .+++++|++.|++..+.+        +...+..+...+..    .+++++|...++...+.+   +...+
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~--------~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~  149 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK--------YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGC  149 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC--------CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHH
Confidence            666666    666666666666665541        34455555555555    666666666666666554   34445


Q ss_pred             HHHHHHHHh----hcCHHHHHHHHHHcccC-ChhhHHHHHHHHhc----cCchhHHHHHHHHHhhc
Q 044786          156 GSLINFYGK----FRCLEDADFVFSQLKRH-NTVVWTAKIVNNCR----EGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       156 ~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~  212 (340)
                      ..+...|..    .+++++|...|++..+. +...+..+...|..    .+++++|+..|++..+.
T Consensus       150 ~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~  215 (273)
T 1ouv_A          150 TILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACEL  215 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhC
Confidence            555555555    55666666666554433 34445555555555    55556665555555543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.53  E-value=5e-12  Score=110.95  Aligned_cols=305  Identities=8%  Similarity=-0.050  Sum_probs=197.8

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhc----C-CC-CCHHHHHHHHHHHHhc--CChhHHHHHHhhcC--cC-Ccc
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRV----N-IK-PTLLFLNRLLLMHVSC--GQLDTARQLFDEMP--LR-DFN   78 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----g-~~-~~~~~~~~li~~~~~~--~~~~~a~~~~~~~~--~~-~~~   78 (340)
                      ..+|+.+...|...|++++|...++......    + .. ....++..+..++.+.  +++++|.+.|++..  .| ++.
T Consensus        94 ~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~  173 (472)
T 4g1t_A           94 LVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPE  173 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHH
Confidence            4578889999999999999999999877531    0 11 2356666665555554  57999999999876  33 344


Q ss_pred             cHHHHHHH---HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhh----hccchhhHHHHHHHHHHcCCCCc
Q 044786           79 SWAVMIVG---YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV----CTMNMELGKQVHGLLFKLGSSRN  151 (340)
Q Consensus        79 ~~~~li~~---~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~  151 (340)
                      .+..+...   +...++.++|++.+++..+..      +.+..++..+...+.    ..+++++|.+.++........ +
T Consensus       174 ~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~------p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~  246 (472)
T 4g1t_A          174 FTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN------PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-V  246 (472)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC------SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-C
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC------CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-H
Confidence            45544444   345677889999999998874      345555655554444    346789999999998887644 6


Q ss_pred             hhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhcc-------------------CchhHHHHHHHHH
Q 044786          152 ISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCRE-------------------GHFHQVFNDFKEM  209 (340)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~-------------------~~~~~a~~~~~~m  209 (340)
                      ..++..+...|...|++++|...|++..+  | +..++..+..+|...                   +.+++|...+++.
T Consensus       247 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  326 (472)
T 4g1t_A          247 TDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKA  326 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            67888999999999999999999998763  2 455666665555332                   3466788888877


Q ss_pred             hhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHH--HHHHHHH-HHhccCCHHHHHHHHHHhhc----
Q 044786          210 GRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEY--VQCGLVD-MYGKCRLLRDAERVFELIVD----  282 (340)
Q Consensus       210 ~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~li~-~~~~~~~~~~A~~~~~~~~~----  282 (340)
                      .+.. +.+..++..+...+...|++++ |...++........+...  .+..+.. .+.+.|+.++|...|++...    
T Consensus       327 ~~~~-~~~~~~~~~lg~~~~~~~~~~~-A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~  404 (472)
T 4g1t_A          327 DEAN-DNLFRVCSILASLHALADQYEE-AEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQK  404 (472)
T ss_dssp             HHHC-TTTCCCHHHHHHHHHHTTCHHH-HHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCC
T ss_pred             hhcC-CchhhhhhhHHHHHHHhccHHH-HHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc
Confidence            6643 2345667888888999999977 778887777655444321  2222222 23467889999888876532    


Q ss_pred             ----------------------CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCC-ccchhH
Q 044786          283 ----------------------KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGI-QIQESL  323 (340)
Q Consensus       283 ----------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~t  323 (340)
                                            +.+..+|+.+...|...|++++|++.|++..+.|- .|+..+
T Consensus       405 ~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~  468 (472)
T 4g1t_A          405 SREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASS  468 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---------------------
T ss_pred             cHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhh
Confidence                                  23567899999999999999999999999887753 354443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.52  E-value=6.7e-13  Score=105.58  Aligned_cols=193  Identities=11%  Similarity=0.026  Sum_probs=90.4

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .|..+...+...|++++|...|++..+..      +.+...+..+...+...|++++|...++.+.+.... +...+..+
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l   97 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEEN------KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGA   97 (243)
T ss_dssp             -----------------CCTTHHHHHTTC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhC------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHH
Confidence            34444445555555555555555555442      233444555555555555555555555555444321 33444444


Q ss_pred             HHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchh
Q 044786          159 INFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDG  235 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~  235 (340)
                      ...|...|++++|.+.++++.+   .+...+..+...+...|++++|...+++..+..  |                   
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~-------------------  156 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--E-------------------  156 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--T-------------------
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--C-------------------
Confidence            5555555555555555544331   133344445555555555555555555544321  1                   


Q ss_pred             chHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          236 NCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                                      .+...+..+...|.+.|++++|.+.+++...  +.+..+|..+...|.+.|++++|.+.+++..
T Consensus       157 ----------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  220 (243)
T 2q7f_A          157 ----------------NDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAI  220 (243)
T ss_dssp             ----------------TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHH
T ss_pred             ----------------ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence                            1233444555556666666666666665544  2345566666666666666666666666665


Q ss_pred             Hc
Q 044786          314 AS  315 (340)
Q Consensus       314 ~~  315 (340)
                      +.
T Consensus       221 ~~  222 (243)
T 2q7f_A          221 DI  222 (243)
T ss_dssp             HH
T ss_pred             cc
Confidence            54

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.47  E-value=1.1e-10  Score=103.99  Aligned_cols=295  Identities=9%  Similarity=-0.012  Sum_probs=208.4

Q ss_pred             cchhHHHHHHhhh---------ccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHH-------------HhcCChhHHHH
Q 044786           10 TDMYTCLIKECTF---------QKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMH-------------VSCGQLDTARQ   67 (340)
Q Consensus        10 ~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~-------------~~~~~~~~a~~   67 (340)
                      ...|...+....+         .|+++.|..+|+...+. ...+....|.......             .+.++++.|..
T Consensus       121 ~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~-P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~  199 (530)
T 2ooe_A          121 YQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN-PMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARR  199 (530)
T ss_dssp             HHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS-CCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc-hhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHH
Confidence            4456666665543         78999999999999864 3222234444332211             13456677776


Q ss_pred             HHhh-------cC------cCC--------cccHHHHHHHHHcc----cCh----hHHHHHHHHHHHhhcCCccccchHH
Q 044786           68 LFDE-------MP------LRD--------FNSWAVMIVGYVDV----ADY----QECITLFAEMMKRKKGHMLLVFPAW  118 (340)
Q Consensus        68 ~~~~-------~~------~~~--------~~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~~~~~~~~~~~~~  118 (340)
                      +++.       +.      .|+        ...|...+......    ++.    .++..+|++.....      +.+..
T Consensus       200 ~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~------p~~~~  273 (530)
T 2ooe_A          200 VAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL------GHHPD  273 (530)
T ss_dssp             HHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH------TTCHH
T ss_pred             HHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC------CCCHH
Confidence            6654       11      111        12444444332221    232    37788999999884      45677


Q ss_pred             HHHHHHHHhhh-------ccchh-------hHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-
Q 044786          119 IIVCVLKACVC-------TMNME-------LGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-  181 (340)
Q Consensus       119 ~~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-  181 (340)
                      .|......+.+       .|+++       +|..+++...+.-.+.+...+..++..+.+.|++++|..+|+++.+  | 
T Consensus       274 ~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~  353 (530)
T 2ooe_A          274 IWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI  353 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc
Confidence            88888887775       68877       8999999988632234678899999999999999999999999764  3 


Q ss_pred             Ch-hhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHH-HhcccCCchhchHHHHHHHHHHhCCCccHHHHH
Q 044786          182 NT-VVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVL-KACGGVDDDGNCGRQMHANIVKIGLESDEYVQC  258 (340)
Q Consensus       182 ~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (340)
                      +. ..|..++..+.+.|++++|..+|++..+.  .|+ ...|.... ..+...|+.++ +..+++...+.. +-++..|.
T Consensus       354 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~-A~~~~e~al~~~-p~~~~~~~  429 (530)
T 2ooe_A          354 DPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV-AFKIFELGLKKY-GDIPEYVL  429 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHH-HHHHHHHHHHHH-TTCHHHHH
T ss_pred             CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhH-HHHHHHHHHHHC-CCCHHHHH
Confidence            32 47999999999999999999999999875  333 22232211 12335788866 888888776653 34688999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhcC-C-c----HHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          259 GLVDMYGKCRLLRDAERVFELIVDK-K-N----IASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       259 ~li~~~~~~~~~~~A~~~~~~~~~~-~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .++..+.+.|+.++|..+|++.... | +    ...|...+......|+.+.+..+++++.+.
T Consensus       430 ~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          430 AYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999998763 2 2    348888898889999999999999998765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=7.2e-12  Score=95.28  Aligned_cols=160  Identities=10%  Similarity=-0.004  Sum_probs=88.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      ++.+|..+...|.+.|++++|++.|++..+   .+..+|..+...+.+.|++++|+..+.......      +.+...+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~   77 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD------TTSAEAYY   77 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------CCCHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC------chhHHHHH
Confidence            344555555555555555555555555441   233345555555555555555555555555542      23344445


Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCc
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGH  198 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~  198 (340)
                      .+...+...++++.+...+....+.... +...+..+...|.+.|++++|.+.|++..+   .+..+|..+..+|.+.|+
T Consensus        78 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~  156 (184)
T 3vtx_A           78 ILGSANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGL  156 (184)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCC
Confidence            5555555555555555555555554322 444555556666666666666666665432   244556666666666666


Q ss_pred             hhHHHHHHHHHhh
Q 044786          199 FHQVFNDFKEMGR  211 (340)
Q Consensus       199 ~~~a~~~~~~m~~  211 (340)
                      +++|+..|++..+
T Consensus       157 ~~~A~~~~~~al~  169 (184)
T 3vtx_A          157 RDEAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666666655

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.47  E-value=1.1e-10  Score=96.40  Aligned_cols=213  Identities=9%  Similarity=-0.021  Sum_probs=166.1

Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh-------ccch-------hhHHHHHHHHHHc-CCCCchhHHHHH
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC-------TMNM-------ELGKQVHGLLFKL-GSSRNISLTGSL  158 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~-------~~a~~~~~~~~~~-~~~~~~~~~~~l  158 (340)
                      ++|..+|++.....      +.+...|..+...+..       .|++       ++|..+|++..+. .. .+...|..+
T Consensus        33 ~~a~~~~~~al~~~------p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~  105 (308)
T 2ond_A           33 KRVMFAYEQCLLVL------GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAY  105 (308)
T ss_dssp             HHHHHHHHHHHHHH------TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHHHHc------CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHH
Confidence            67888999998874      5566677777777653       4775       8999999999884 42 356688999


Q ss_pred             HHHHHhhcCHHHHHHHHHHcccC---Chh-hHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHh-cccCCc
Q 044786          159 INFYGKFRCLEDADFVFSQLKRH---NTV-VWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKA-CGGVDD  233 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~-~~~~~~  233 (340)
                      ...+.+.|++++|.++|++..+.   +.. .|..+...+.+.|++++|..+|++..+.. +++...|...... +...|+
T Consensus       106 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~  184 (308)
T 2ond_A          106 ADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCC
T ss_pred             HHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCC
Confidence            99999999999999999998643   343 79999999999999999999999998753 2233344332222 223688


Q ss_pred             hhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc----CC--cHHHHHHHHHHHHHcCchHHHHH
Q 044786          234 DGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD----KK--NIASWNAMLVGYIRNGLYVEATK  307 (340)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~----~~--~~~~~~~li~~~~~~~~~~~a~~  307 (340)
                      .++ +..+++...+.. +-+...|..++..+.+.|++++|..+|++...    .|  ....|..++..+.+.|+.++|..
T Consensus       185 ~~~-A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~  262 (308)
T 2ond_A          185 KSV-AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             HHH-HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HHH-HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            866 777877776653 34778899999999999999999999999987    23  45689999999999999999999


Q ss_pred             HHHHHHHcC
Q 044786          308 FLYLMKASG  316 (340)
Q Consensus       308 ~~~~m~~~g  316 (340)
                      +++++.+..
T Consensus       263 ~~~~a~~~~  271 (308)
T 2ond_A          263 VEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            999987663

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=8.2e-12  Score=94.96  Aligned_cols=166  Identities=11%  Similarity=0.013  Sum_probs=133.8

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      ++..|..+-..+.+.|++++|++.|++..+.  -+-+...+..+..++.+.|++++|.+.++....   .+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Confidence            5667888888888899999999999988876  344677888888888999999999988887762   34446777777


Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      .+...++++.+.+.+.+.....      +.+...+..+...+.+.|++++|.+.|+...+..+. +..++..+..+|.+.
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~  154 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN------TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGK  154 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC------ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHC
Confidence            8888889999999998888774      455677888888888899999999999888887643 677888888889999


Q ss_pred             cCHHHHHHHHHHcccCCh
Q 044786          166 RCLEDADFVFSQLKRHNT  183 (340)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~  183 (340)
                      |++++|.+.|++..+.+.
T Consensus       155 g~~~~A~~~~~~al~~~p  172 (184)
T 3vtx_A          155 GLRDEAVKYFKKALEKEE  172 (184)
T ss_dssp             TCHHHHHHHHHHHHHTTH
T ss_pred             CCHHHHHHHHHHHHhCCc
Confidence            999999998888765543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=1.7e-10  Score=98.19  Aligned_cols=307  Identities=11%  Similarity=-0.019  Sum_probs=209.4

Q ss_pred             CCcchhHHHHHHh--hhccchhhHHHHHHHHHhhc-CCCCC--HHHHHHHHHHH--HhcCChhHHH---------HHHhh
Q 044786            8 ITTDMYTCLIKEC--TFQKDSAGAFELLNHIRKRV-NIKPT--LLFLNRLLLMH--VSCGQLDTAR---------QLFDE   71 (340)
Q Consensus         8 ~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~-g~~~~--~~~~~~li~~~--~~~~~~~~a~---------~~~~~   71 (340)
                      |+...=+.+-.-|  .+.+++++|.++++.+.+.. ....|  ...|-.++..-  .-.+.++.+.         +.++.
T Consensus         8 ~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~   87 (378)
T 3q15_A            8 PSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLET   87 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHH
Confidence            3333334444444  67899999999999987652 22223  33344444321  1112222222         44444


Q ss_pred             cC---cCCc--c---cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHH
Q 044786           72 MP---LRDF--N---SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLL  143 (340)
Q Consensus        72 ~~---~~~~--~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  143 (340)
                      +.   .+..  .   .|-.....+...|++++|+..|++........+.......++..+...+...|+++.|...++..
T Consensus        88 i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~a  167 (378)
T 3q15_A           88 IETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQA  167 (378)
T ss_dssp             HHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            43   2211  1   12233445678999999999999998763222111234568889999999999999999999887


Q ss_pred             HHcCC-----CC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---------ChhhHHHHHHHHhccCchhHHHHHHHH
Q 044786          144 FKLGS-----SR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKE  208 (340)
Q Consensus       144 ~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~  208 (340)
                      .+...     .+ ...+++.+...|...|++++|.+.|++..+-         ...+++.+...|...|++++|...+++
T Consensus       168 l~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~  247 (378)
T 3q15_A          168 LDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQK  247 (378)
T ss_dssp             HHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            65421     11 2457788999999999999999999886531         234688899999999999999999999


Q ss_pred             Hhhc----ccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhC----CCccHHHHHHHHHHHhccCC---HHHHHHHH
Q 044786          209 MGRE----RIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIG----LESDEYVQCGLVDMYGKCRL---LRDAERVF  277 (340)
Q Consensus       209 m~~~----~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~li~~~~~~~~---~~~A~~~~  277 (340)
                      ..+.    +.+....++..+...+.+.|++++ |...++......    -+.....+..+-..|...++   +.+|...+
T Consensus       248 al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~-A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~  326 (378)
T 3q15_A          248 AAKVSREKVPDLLPKVLFGLSWTLCKAGQTQK-AFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYF  326 (378)
T ss_dssp             HHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHhhCChhHHHHHHHHHHHHHHCCCHHH-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            8761    222235677888889999999977 777766665542    23334566777778888888   88899888


Q ss_pred             HHhhcCC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          278 ELIVDKK-NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       278 ~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      +.....+ ....+..+...|...|++++|...|++..+.
T Consensus       327 ~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          327 EKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            8865433 3346678889999999999999999987543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.42  E-value=2e-11  Score=106.46  Aligned_cols=281  Identities=11%  Similarity=-0.051  Sum_probs=146.2

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCCh---hHHHHHHhhcCcCCcccHHHHHHHHHccc
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQL---DTARQLFDEMPLRDFNSWAVMIVGYVDVA   91 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~g   91 (340)
                      .+...+.+.|++++|.++|+...+. |.   ...+..|-..|...|+.   ++|.+.|++..+.++..+..+...+...+
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~-g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAEL-GY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH-TC---CTGGGTCC----------------------------CHHHHHHHHHTC-
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHC-CC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCC
Confidence            3566778899999999999999887 63   33444555666667777   89999999888777777888877555554


Q ss_pred             -----ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccch---hhHHHHHHHHHHcCC---------------
Q 044786           92 -----DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNM---ELGKQVHGLLFKLGS---------------  148 (340)
Q Consensus        92 -----~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~---------------  148 (340)
                           ++++|++.|++..+.+      .++  .+..+...+...+..   ..+.+.+......|.               
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g------~~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANG------EGN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQG  155 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTT------CSS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHT
T ss_pred             CCCCcCHHHHHHHHHHHHHCC------CHH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC
Confidence                 7889999999988874      222  333444444433322   222222222222221               


Q ss_pred             -----------------CCchhHHHHHHHHHHhhc---CHHHHHHHHHHcccC---ChhhHHHHHHHHhcc----CchhH
Q 044786          149 -----------------SRNISLTGSLINFYGKFR---CLEDADFVFSQLKRH---NTVVWTAKIVNNCRE----GHFHQ  201 (340)
Q Consensus       149 -----------------~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~----~~~~~  201 (340)
                                       ..++..+..|...|.+.|   +.++|.+.|++..+.   +...+..+...|...    +++++
T Consensus       156 ~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~  235 (452)
T 3e4b_A          156 TYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKT  235 (452)
T ss_dssp             CGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHH
T ss_pred             CcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHH
Confidence                             223335555666666666   666666666665433   222234555555443    56666


Q ss_pred             HHHHHHHHhhcccCCChhhHHHHHHh-c--ccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccC-----CHHHH
Q 044786          202 VFNDFKEMGRERIKKNSYTFSSVLKA-C--GGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCR-----LLRDA  273 (340)
Q Consensus       202 a~~~~~~m~~~~~~p~~~t~~~ll~~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~A  273 (340)
                      |+..|++.. .|.   ...+..+-.. +  ...++.++ +..+++...+.|   ++..+..|-..|. .|     ++++|
T Consensus       236 A~~~~~~aa-~g~---~~a~~~Lg~~~~~~~~~~d~~~-A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A  306 (452)
T 3e4b_A          236 AQALLEKIA-PGY---PASWVSLAQLLYDFPELGDVEQ-MMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAA  306 (452)
T ss_dssp             HHHHHHHHG-GGS---THHHHHHHHHHHHSGGGCCHHH-HHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHH
T ss_pred             HHHHHHHHc-CCC---HHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHH
Confidence            666666665 322   2222222222 1  33556544 555555555554   4444555555555 34     67777


Q ss_pred             HHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHHHHHHHcCC
Q 044786          274 ERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFLYLMKASGI  317 (340)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~  317 (340)
                      .+.|++.. ..++..+..|...|..    ..++++|..+|++..+.|.
T Consensus       307 ~~~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          307 EAHFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            77777776 5566666666665554    3377777777777766664

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.42  E-value=1.2e-11  Score=108.63  Aligned_cols=210  Identities=11%  Similarity=-0.066  Sum_probs=136.0

Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccch-hhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNM-ELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      ++++++.+++.....      +.+...+..+...+...|++ ++|.+.|+...+.... +...|..+...|.+.|++++|
T Consensus        84 ~~~al~~l~~~~~~~------~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A  156 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA------QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSA  156 (474)
T ss_dssp             HHHHHHHHHHHHTTC------CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHhccC------chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            344455555444331      33555666666666666776 7777777666665432 455666666777777777777


Q ss_pred             HHHHHHcc--cCChhhHHHHHHHHhcc---------CchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccC--------
Q 044786          172 DFVFSQLK--RHNTVVWTAKIVNNCRE---------GHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGV--------  231 (340)
Q Consensus       172 ~~~~~~~~--~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~--------  231 (340)
                      .+.|++..  .|+...+..+...|...         |++++|+..|++..+.  .| +...|..+..++...        
T Consensus       157 ~~~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~  234 (474)
T 4abn_A          157 HTCFSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNP  234 (474)
T ss_dssp             HHHHHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhcccc
Confidence            77776654  23445566666666666         7777777777776664  23 345566666666655        


Q ss_pred             CchhchHHHHHHHHHHhCCC--ccHHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHH
Q 044786          232 DDDGNCGRQMHANIVKIGLE--SDEYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATK  307 (340)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~  307 (340)
                      |++++ |...++...+....  -+...|..+..+|...|++++|.+.|++...  +.+...+..+...+...|++++|++
T Consensus       235 g~~~~-A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          235 KISQQ-ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             HHHHH-HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHH-HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            66655 55555555554210  3677788888888888888888888888765  3466678888888888888888887


Q ss_pred             HHHHH
Q 044786          308 FLYLM  312 (340)
Q Consensus       308 ~~~~m  312 (340)
                      .+.++
T Consensus       314 ~~~~~  318 (474)
T 4abn_A          314 SKGKT  318 (474)
T ss_dssp             HTTTC
T ss_pred             Hhccc
Confidence            65543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.41  E-value=2e-11  Score=100.74  Aligned_cols=237  Identities=8%  Similarity=0.004  Sum_probs=163.5

Q ss_pred             ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCc--cccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc------CCC
Q 044786           78 NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHM--LLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL------GSS  149 (340)
Q Consensus        78 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~  149 (340)
                      .++..+...+...|++++|...++++.+......  ..+....++..+...+...|++++|...++...+.      +-.
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            3688889999999999999999999998831110  01334567888999999999999999999988765      222


Q ss_pred             -CchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----------ChhhHHHHHHHHhccCchhHHHHHHHHHhhc-----
Q 044786          150 -RNISLTGSLINFYGKFRCLEDADFVFSQLKRH-----------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE-----  212 (340)
Q Consensus       150 -~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----  212 (340)
                       ....++..+...|...|++++|...|++..+.           ....+..+...+...|++++|..++++..+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence             24567888999999999999999999886531           3456888889999999999999999998764     


Q ss_pred             -ccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHh-------CCCc-------cHHHHHHHHHHHhccCCHHHHHHH
Q 044786          213 -RIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKI-------GLES-------DEYVQCGLVDMYGKCRLLRDAERV  276 (340)
Q Consensus       213 -~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~-------~~~~-------~~~~~~~li~~~~~~~~~~~A~~~  276 (340)
                       +..|. ..++..+...+...|++++ +...++.....       ...+       ....+..+...+...+.+.+|...
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~-A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQ-AETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHH-HHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence             21332 3467778888889999877 66666655542       1111       122223333334444555556666


Q ss_pred             HHHhhcC--CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          277 FELIVDK--KNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       277 ~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ++.....  .+..+|..+...|.+.|++++|.+.|++..+.
T Consensus       267 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          267 YKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6665542  35668889999999999999999999987653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=4.9e-12  Score=111.01  Aligned_cols=201  Identities=8%  Similarity=-0.023  Sum_probs=152.2

Q ss_pred             cchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHH
Q 044786           24 KDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQL-DTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITL   99 (340)
Q Consensus        24 ~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~   99 (340)
                      ..++++++.++.....  -+.+...+..+...+...|++ ++|++.|++..+   .+...|..+...|...|++++|.+.
T Consensus        82 ~~~~~al~~l~~~~~~--~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGS--AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTT--CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc--CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3567777777766544  334677788888888888888 888888887762   2455788888888888888888888


Q ss_pred             HHHHHHhhcCCccccchHHHHHHHHHHhhhc---------cchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh-----
Q 044786          100 FAEMMKRKKGHMLLVFPAWIIVCVLKACVCT---------MNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF-----  165 (340)
Q Consensus       100 ~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  165 (340)
                      |++..+.       .|+...+..+...+...         |++++|.+.+++..+.... +...|..+..+|...     
T Consensus       160 ~~~al~~-------~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~  231 (474)
T 4abn_A          160 FSGALTH-------CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTG  231 (474)
T ss_dssp             HHHHHTT-------CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhh-------CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhc
Confidence            8888876       46678888888888888         8888888888888887754 667788888888888     


Q ss_pred             ---cCHHHHHHHHHHccc------CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchh
Q 044786          166 ---RCLEDADFVFSQLKR------HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDG  235 (340)
Q Consensus       166 ---~~~~~a~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~  235 (340)
                         |++++|...|++..+      .+...|..+..+|...|++++|...|++..+.  .|+ ...+..+...+...|+.+
T Consensus       232 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~~lg~~~  309 (474)
T 4abn_A          232 QNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLEFLSRLT  309 (474)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHH
Confidence               888888888888653      35667888888888888888888888888764  343 445666666666666665


Q ss_pred             c
Q 044786          236 N  236 (340)
Q Consensus       236 ~  236 (340)
                      +
T Consensus       310 e  310 (474)
T 4abn_A          310 S  310 (474)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.40  E-value=9.4e-12  Score=102.65  Aligned_cols=238  Identities=11%  Similarity=0.020  Sum_probs=164.2

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhc------CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-------
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRV------NIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-------   74 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------   74 (340)
                      .+..++..+...+...|++++|..+++.+.+..      ..+....++..+...+...|++++|.+.+++...       
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            345678888999999999999999999988731      1233457788899999999999999999988762       


Q ss_pred             C----CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCC--ccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc--
Q 044786           75 R----DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGH--MLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL--  146 (340)
Q Consensus        75 ~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--  146 (340)
                      +    ...++..+...+...|++++|.+.+++..+.....  ...+.....+..+...+...|++++|.++++...+.  
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            2    23368888999999999999999999988762000  000334567888999999999999999999988775  


Q ss_pred             ----CCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC------------------ChhhHHHHHHHHhccCchhHHH
Q 044786          147 ----GSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH------------------NTVVWTAKIVNNCREGHFHQVF  203 (340)
Q Consensus       147 ----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~  203 (340)
                          +..| ...++..+...|...|++++|.+.|++..+.                  ....+..+...+...+.+.++.
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  264 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYG  264 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence                2223 3457888999999999999999999887632                  1112333334444555666666


Q ss_pred             HHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          204 NDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       204 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                      ..++...... +.+..++..+...|...|++++ |..+++...+
T Consensus       265 ~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~-A~~~~~~al~  306 (311)
T 3nf1_A          265 GWYKACKVDS-PTVTTTLKNLGALYRRQGKFEA-AETLEEAAMR  306 (311)
T ss_dssp             ---------C-HHHHHHHHHHHHHHHHHTCHHH-HHHHHHHHHH
T ss_pred             HHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHH-HHHHHHHHHH
Confidence            6666665431 1234567778888888888866 6666665544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=6e-11  Score=98.07  Aligned_cols=196  Identities=8%  Similarity=0.070  Sum_probs=136.2

Q ss_pred             CCcchhHHHHHHhh-------hccch-------hhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhc
Q 044786            8 ITTDMYTCLIKECT-------FQKDS-------AGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEM   72 (340)
Q Consensus         8 ~~~~~~~~li~~~~-------~~~~~-------~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~   72 (340)
                      -++..|..+...+.       +.|++       ++|..+|++..+.  +.| +...|..+...+.+.|++++|.++|++.
T Consensus        48 ~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~--~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  125 (308)
T 2ond_A           48 HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST--LLKKNMLLYFAYADYEESRMKYEKVHSIYNRL  125 (308)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT--TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            34555666655554       24665       7888888888763  344 4567888888888888888888888877


Q ss_pred             Cc--C-Ccc-cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhh-hccchhhHHHHHHHHHHcC
Q 044786           73 PL--R-DFN-SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV-CTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        73 ~~--~-~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~  147 (340)
                      .+  | +.. +|..+...+.+.|++++|.++|++..+..      +++...|........ ..|++++|.++|+...+..
T Consensus       126 l~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~------p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~  199 (308)
T 2ond_A          126 LAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA------RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY  199 (308)
T ss_dssp             HTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST------TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH
T ss_pred             HhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC------CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            63  3 233 67778888888888888888888887663      233444443333322 2578888888888777664


Q ss_pred             CCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-------ChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          148 SSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH-------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       148 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      .. +...+..++..+.+.|++++|..+|++....       ....|..++..+.+.|+.++|..+++++.+.
T Consensus       200 p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          200 GD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             TT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33 5667777788888888888888888876541       2346777777777788888888888887764

>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=99.36  E-value=9.4e-11  Score=88.70  Aligned_cols=160  Identities=12%  Similarity=0.076  Sum_probs=123.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHH
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      ...+..+...+...|++++|.+.|+.+.+.   +..++..+...+...|++++|.+.+++..+..      +.+...+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~   81 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA------PDNVKVATV   81 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CCCHHHHHH
Confidence            345666777778888888888888887643   44567777888888888888888888888773      445667778


Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCch
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHF  199 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~  199 (340)
                      +...+...|++++|.+.++.+.+... .+...+..+...+...|++++|...+++..+   .+..++..+...+...|++
T Consensus        82 ~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  160 (186)
T 3as5_A           82 LGLTYVQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRH  160 (186)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCH
Confidence            88888888888888888888877653 3566777788888888888888888887653   2556788888888888888


Q ss_pred             hHHHHHHHHHhhc
Q 044786          200 HQVFNDFKEMGRE  212 (340)
Q Consensus       200 ~~a~~~~~~m~~~  212 (340)
                      ++|...+++..+.
T Consensus       161 ~~A~~~~~~~~~~  173 (186)
T 3as5_A          161 EEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            8888888887664

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.35  E-value=2.8e-10  Score=97.09  Aligned_cols=250  Identities=10%  Similarity=-0.029  Sum_probs=180.3

Q ss_pred             HHHHHHHhhcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcCc-----CC----cccHHHHHHHHHcccChhHHH
Q 044786           31 ELLNHIRKRVNIKPTL----LFLNRLLLMHVSCGQLDTARQLFDEMPL-----RD----FNSWAVMIVGYVDVADYQECI   97 (340)
Q Consensus        31 ~~~~~m~~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~a~   97 (340)
                      +.++.+... .-..+.    ..+-.....+...|++++|.+.|++..+     ++    ..+|..+...|...|++++|+
T Consensus        85 ~~~~~i~~~-~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~  163 (383)
T 3ulq_A           85 DLLLEIDKK-QARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSM  163 (383)
T ss_dssp             HHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hHHHHHHhc-CCCchhHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            777777654 211111    1122245667889999999999998753     22    246888999999999999999


Q ss_pred             HHHHHHHHhhcCCcc-ccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-C----chhHHHHHHHHHHhhcCHHHH
Q 044786           98 TLFAEMMKRKKGHML-LVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-R----NISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      ..+++..+....... ......++..+...+...|++++|...++...+.... +    ...++..+...|...|++++|
T Consensus       164 ~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A  243 (383)
T 3ulq_A          164 DYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDA  243 (383)
T ss_dssp             HHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHH
Confidence            999999876322211 1223568889999999999999999999887754211 1    124788899999999999999


Q ss_pred             HHHHHHccc-----C----ChhhHHHHHHHHhccCchhHHHHHHHHHhhccc---CC-ChhhHHHHHHhcccCCchhchH
Q 044786          172 DFVFSQLKR-----H----NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERI---KK-NSYTFSSVLKACGGVDDDGNCG  238 (340)
Q Consensus       172 ~~~~~~~~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p-~~~t~~~ll~~~~~~~~~~~~~  238 (340)
                      .+.|++..+     .    ...++..+...|...|++++|...+++..+...   .| ....+..+-..+...|+. +..
T Consensus       244 ~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~  322 (383)
T 3ulq_A          244 IPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDE-EAI  322 (383)
T ss_dssp             HHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCH-HHH
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcH-HHH
Confidence            999988754     2    244688899999999999999999999865311   12 123356677778888874 224


Q ss_pred             HHHHHHHHHhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          239 RQMHANIVKIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       239 ~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      ........+.+..| ....+..+...|.+.|++++|.+.+++...
T Consensus       323 ~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          323 QGFFDFLESKMLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            44555555555444 345777899999999999999999988754

>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=99.34  E-value=5.2e-11  Score=90.15  Aligned_cols=161  Identities=13%  Similarity=0.064  Sum_probs=140.3

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ...|..+...+...|++++|.+.++.+...  .+.+...+..+...+...|++++|.+.++...+   .+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            345677888889999999999999998865  345788899999999999999999999998763   355678888999


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      +...|++++|.+.+++.....      +.+...+..+...+...|++++|...++...+... .+...+..+...+...|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~  158 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN------PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMG  158 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHhcCHHHHHHHHHHHHhcC------cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcC
Confidence            999999999999999999884      55677889999999999999999999999988763 36788899999999999


Q ss_pred             CHHHHHHHHHHcc
Q 044786          167 CLEDADFVFSQLK  179 (340)
Q Consensus       167 ~~~~a~~~~~~~~  179 (340)
                      ++++|...++...
T Consensus       159 ~~~~A~~~~~~~~  171 (186)
T 3as5_A          159 RHEEALPHFKKAN  171 (186)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999998865

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.33  E-value=1.1e-08  Score=86.84  Aligned_cols=265  Identities=12%  Similarity=0.018  Sum_probs=177.3

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCCCCC-H----HHHHHHHHHHHhcCChhHHHHHHhhcCc-----CCc----ccH
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNIKPT-L----LFLNRLLLMHVSCGQLDTARQLFDEMPL-----RDF----NSW   80 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~-~----~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~----~~~   80 (340)
                      .....+...|++++|...++..... . +++ .    ..++.+...+...|++++|.+.+++...     .+.    .++
T Consensus        19 ~~a~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           19 LRAQVAINDGNPDEAERLAKLALEE-L-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT-C-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHc-C-CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3444566789999999999998876 2 222 2    2566677788889999999999988662     122    135


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccc-cc-hHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC----chhH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLL-VF-PAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR----NISL  154 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~  154 (340)
                      ..+...+...|++++|.+.+++........... .| ....+..+...+...|++++|...+++..+.....    ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            667778889999999999999988763111000 02 34466778888899999999999999887654321    2346


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHccc----CCh-hhHH-----HHHHHHhccCchhHHHHHHHHHhhcccCCC---hhhH
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLKR----HNT-VVWT-----AKIVNNCREGHFHQVFNDFKEMGRERIKKN---SYTF  221 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~-----~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~t~  221 (340)
                      +..+...+...|++++|...+++...    ++. ..+.     ..+..+...|++++|...+++.......+.   ...+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            77788889999999999999887642    221 1222     233447789999999999988865432111   1234


Q ss_pred             HHHHHhcccCCchhchHHHHHHHHHH----hCCCccH-HHHHHHHHHHhccCCHHHHHHHHHHhhc
Q 044786          222 SSVLKACGGVDDDGNCGRQMHANIVK----IGLESDE-YVQCGLVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       222 ~~ll~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      ..+...+...|++++ +...++....    .|..++. .++..+...+...|+.++|...+++...
T Consensus       257 ~~la~~~~~~g~~~~-A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          257 RNIARAQILLGEFEP-AEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHTTCHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHH-HHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            555666777777766 4444443322    2222222 2555666777778888888887777653

>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=99.32  E-value=4.3e-11  Score=109.46  Aligned_cols=163  Identities=13%  Similarity=-0.022  Sum_probs=134.8

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMI   84 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li   84 (340)
                      -++.+|+.+-..+.+.|++++|++.|++..+.  -+-+...++.+..+|.+.|++++|++.|++..+   .+...|..+.
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg   84 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            34678888999999999999999999998876  344578888899999999999999999988762   3556788888


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      ..+...|++++|++.|++..+..      +-+...|..+..++.+.|++++|.+.|++..+.... +...+..+..+|..
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~------P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~  157 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN------PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQI  157 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHh
Confidence            89999999999999999988874      445678888899999999999999999988887644 56788888888999


Q ss_pred             hcCHHHHHHHHHHcc
Q 044786          165 FRCLEDADFVFSQLK  179 (340)
Q Consensus       165 ~~~~~~a~~~~~~~~  179 (340)
                      .|++++|.+.+++..
T Consensus       158 ~g~~~~A~~~~~kal  172 (723)
T 4gyw_A          158 VCDWTDYDERMKKLV  172 (723)
T ss_dssp             TTCCTTHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHH
Confidence            999888888877654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.32  E-value=6.6e-10  Score=94.35  Aligned_cols=286  Identities=10%  Similarity=0.020  Sum_probs=194.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHhhcCc--C--Ccc----cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           50 NRLLLMHVSCGQLDTARQLFDEMPL--R--DFN----SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        50 ~~li~~~~~~~~~~~a~~~~~~~~~--~--~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      ......+...|++++|...+++...  +  +..    +++.+...+...|++++|.+.+++................++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            3444566788999999999887542  2  211    3566677888999999999999998875311100011234567


Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHc----CCC--C-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC--------ChhhH
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKL----GSS--R-NISLTGSLINFYGKFRCLEDADFVFSQLKRH--------NTVVW  186 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~  186 (340)
                      .+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++..+.        ...++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            7888899999999999999887653    222  2 2345677888999999999999999886421        23467


Q ss_pred             HHHHHHHhccCchhHHHHHHHHHhhcccCCCh-hhHH-----HHHHhcccCCchhchHHHHHHHHHHhCCCc---cHHHH
Q 044786          187 TAKIVNNCREGHFHQVFNDFKEMGRERIKKNS-YTFS-----SVLKACGGVDDDGNCGRQMHANIVKIGLES---DEYVQ  257 (340)
Q Consensus       187 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~-----~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~  257 (340)
                      ..+...+...|++++|...+++.....-.++. ..+.     .....+...|+.++ +...++........+   ....+
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAA-AANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHH-HHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHH-HHHHHHhCCCCCCCcchhhHHHH
Confidence            78888899999999999999998754222221 1121     22334668899866 666666554332111   12356


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhcC----C---cH-HHHHHHHHHHHHcCchHHHHHHHHHHHHc----CCc----cch
Q 044786          258 CGLVDMYGKCRLLRDAERVFELIVDK----K---NI-ASWNAMLVGYIRNGLYVEATKFLYLMKAS----GIQ----IQE  321 (340)
Q Consensus       258 ~~li~~~~~~~~~~~A~~~~~~~~~~----~---~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~----~~~  321 (340)
                      ..+...+...|++++|...++.....    +   +. ..+..+..++...|+.++|...+++....    |..    ...
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~~~~g  336 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEG  336 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccccHHHHHHHcc
Confidence            67888999999999999999887641    1   22 25666778889999999999999886543    321    112


Q ss_pred             hHHHHHHHHhhhcCc
Q 044786          322 SLINDLRIACSSISA  336 (340)
Q Consensus       322 ~t~~~ll~a~~~~g~  336 (340)
                      .....++..|.....
T Consensus       337 ~~~~~ll~~~~~~~~  351 (373)
T 1hz4_A          337 EAMAQQLRQLIQLNT  351 (373)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCC
Confidence            334556666655544

>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=99.30  E-value=7.6e-11  Score=107.87  Aligned_cols=160  Identities=9%  Similarity=-0.032  Sum_probs=142.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      +...++.|...+.+.|++++|++.|++..+   .+..+|+.+...|.+.|++++|++.|++.++..      +-+...|.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~------P~~~~a~~   81 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS------PTFADAYS   81 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------CCCHHHHH
Confidence            467899999999999999999999998773   356689999999999999999999999999984      44577999


Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCc
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGH  198 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~  198 (340)
                      .+..++.+.|++++|.+.|++..+.... +...|+.+..+|.+.|++++|.+.|++..+  | +...|..+..++...|+
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhccc
Confidence            9999999999999999999999988644 678899999999999999999999999763  3 67789999999999999


Q ss_pred             hhHHHHHHHHHhh
Q 044786          199 FHQVFNDFKEMGR  211 (340)
Q Consensus       199 ~~~a~~~~~~m~~  211 (340)
                      +++|.+.+++..+
T Consensus       161 ~~~A~~~~~kal~  173 (723)
T 4gyw_A          161 WTDYDERMKKLVS  173 (723)
T ss_dssp             CTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988765

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.30  E-value=3.4e-09  Score=92.38  Aligned_cols=276  Identities=11%  Similarity=-0.016  Sum_probs=182.0

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhH---HHHHHhhcC-cCCcccHHHHHHHHHcccChhHHHHHH
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDT---ARQLFDEMP-LRDFNSWAVMIVGYVDVADYQECITLF  100 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~  100 (340)
                      +.++|.+.|+..... |...   .+..|...|...+..++   +.+.+.... ..+...+..+...|...+.++++....
T Consensus        89 ~~~~A~~~~~~Aa~~-g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a  164 (452)
T 3e4b_A           89 EHHEAESLLKKAFAN-GEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDV  164 (452)
T ss_dssp             HHHHHHHHHHHHHHT-TCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHH
T ss_pred             CHHHHHHHHHHHHHC-CCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHH
Confidence            566666666666665 4322   44445555554443322   233333222 224555666666666666555544443


Q ss_pred             HHHHHhhcCCccccchHHHHHHHHHHhhhcc---chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh----cCHHHHHH
Q 044786          101 AEMMKRKKGHMLLVFPAWIIVCVLKACVCTM---NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF----RCLEDADF  173 (340)
Q Consensus       101 ~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~  173 (340)
                      ....+.-.     ..+...+..+...+...|   +.++|.+.|+...+.|.. +...+..+...|...    +++++|..
T Consensus       165 ~~~~~~a~-----~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          165 ERICKAAL-----NTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             HHHHHHHT-----TTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             HHHHHHHH-----cCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            33333311     122237778888888888   999999999999988844 555556677777655    78999999


Q ss_pred             HHHHcccCChhhHHHHHHH-H--hccCchhHHHHHHHHHhhcccCCChhhHHHHHHhccc----CCchhchHHHHHHHHH
Q 044786          174 VFSQLKRHNTVVWTAKIVN-N--CREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG----VDDDGNCGRQMHANIV  246 (340)
Q Consensus       174 ~~~~~~~~~~~~~~~li~~-~--~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~~~~~~~~~~~~  246 (340)
                      .|++....+...+..+... +  ...+++++|+..|++..+.|   +......+-..|..    ..+..+ +..+++...
T Consensus       239 ~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~-A~~~~~~Aa  314 (452)
T 3e4b_A          239 LLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYYEGKWVPADAKA-AEAHFEKAV  314 (452)
T ss_dssp             HHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH-HHHHHHTTT
T ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH-HHHHHHHHh
Confidence            9999883366777777776 4  56889999999999998876   34444444444442    226645 555555444


Q ss_pred             HhCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHHHHHHHcCCc
Q 044786          247 KIGLESDEYVQCGLVDMYGK----CRLLRDAERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       247 ~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~  318 (340)
                          +-++..+..|-..|..    ..++++|.+.|++.....+......|...|..    .+++++|..+|+.-.+.|..
T Consensus       315 ----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          315 ----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             ----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             ----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence                4466677777777766    44899999999999877777777778777764    46899999999998888754

>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=99.25  E-value=4.5e-10  Score=91.06  Aligned_cols=133  Identities=8%  Similarity=0.034  Sum_probs=80.8

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCC--ccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc------CC-C
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGH--MLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL------GS-S  149 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~  149 (340)
                      ++..+...+...|++++|+..+++........  ...+....++..+...+...|++++|.+.++...+.      .. .
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  124 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHP  124 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            34555555555566666665555555431000  000233446666666666667777776666665544      11 1


Q ss_pred             CchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----------ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          150 RNISLTGSLINFYGKFRCLEDADFVFSQLKRH-----------NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      ....++..+...|...|++++|...|++..+.           ...++..+...|...|++++|...+++..+
T Consensus       125 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          125 DVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23456667777777778877777777765422           234677778888888888888888888765

>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=99.23  E-value=1.6e-10  Score=93.67  Aligned_cols=224  Identities=12%  Similarity=0.050  Sum_probs=150.7

Q ss_pred             hhccchhhHHHHHHHHHhhc------CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-------C----CcccHHHH
Q 044786           21 TFQKDSAGAFELLNHIRKRV------NIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-------R----DFNSWAVM   83 (340)
Q Consensus        21 ~~~~~~~~a~~~~~~m~~~~------g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------~----~~~~~~~l   83 (340)
                      ...|+++.|.+.+++..+..      ..+....++..+...+...|++++|.+.|++...       +    ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            45677788887777776631      1223467888999999999999999999988762       1    23368889


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCC--ccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc------CCCC-chhH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGH--MLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL------GSSR-NISL  154 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  154 (340)
                      ...+...|++++|.+.+++........  +..+....++..+...+...|++++|...+++..+.      +-.| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            999999999999999999988762000  000344668889999999999999999999988776      2122 3567


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHcccC------------ChhhHHHHHHHHhccCchhHHH------HHHHHHhhcccCC
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLKRH------------NTVVWTAKIVNNCREGHFHQVF------NDFKEMGRERIKK  216 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~------------~~~~~~~li~~~~~~~~~~~a~------~~~~~m~~~~~~p  216 (340)
                      +..+...|...|++++|...+++..+.            ....|..+...+...+....+.      ..++....  ..|
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~  249 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSP  249 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCH
Confidence            888999999999999999999887531            1223333333333333322222      22222111  112


Q ss_pred             -ChhhHHHHHHhcccCCchhchHHHHHHHHHH
Q 044786          217 -NSYTFSSVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       217 -~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                       ...++..+...+...|++++ |..+++...+
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~-A~~~~~~al~  280 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEA-AHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCHHH-HHHHHHHHHH
Confidence             24467778888888888866 6666665543

>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=99.23  E-value=1.5e-09  Score=85.44  Aligned_cols=194  Identities=14%  Similarity=0.015  Sum_probs=135.2

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMI   84 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li   84 (340)
                      .++..+......+...|++++|.+.|+..... .-+++...+..+..++.+.|++++|++.|++..+.   +..+|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKL-TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhc-cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            35677888888888899999999999998887 32267777777888888899999999998887643   344677888


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchH-------HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc---hhH
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPA-------WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN---ISL  154 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~  154 (340)
                      ..+...|++++|++.+++..+..      +.+.       ..|..+...+...|++++|.+.++...+..  |+   ...
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~  155 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV------PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDA  155 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC------CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHH
Confidence            88888999999999999888873      2233       457777777888888888888888887663  33   456


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHcc---cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChh
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLK---RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSY  219 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  219 (340)
                      +..+...|...|+.     .++++.   ..+...|....  ....+.+++|+..+++..+.  .|+..
T Consensus       156 ~~~l~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~  214 (228)
T 4i17_A          156 LYSLGVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRT  214 (228)
T ss_dssp             HHHHHHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCH
Confidence            66666666655543     222222   12333333322  23345678888888887764  45543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.20  E-value=2.4e-09  Score=87.75  Aligned_cols=168  Identities=11%  Similarity=0.010  Sum_probs=107.3

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhc--C-ChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHH
Q 044786           27 AGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSC--G-QLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEM  103 (340)
Q Consensus        27 ~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~--~-~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  103 (340)
                      .+|.+++.+..+.  .+++...| .++    +.  + ++++|.+.|++.           ...|...|++++|...|.+.
T Consensus         2 ~~a~~~~~~a~k~--~~~~~~~~-~~~----~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~a   63 (292)
T 1qqe_A            2 SDPVELLKRAEKK--GVPSSGFM-KLF----SGSDSYKFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKA   63 (292)
T ss_dssp             CCHHHHHHHHHHH--SSCCCTHH-HHH----SCCSHHHHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHH--hCcCCCcc-hhc----CCCCCccHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHH
Confidence            3577777777776  44432222 222    32  2 488888887665           55677889999999999888


Q ss_pred             HHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC---C--chhHHHHHHHHHHhh-cCHHHHHHHHHH
Q 044786          104 MKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS---R--NISLTGSLINFYGKF-RCLEDADFVFSQ  177 (340)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~  177 (340)
                      .+.............+|+.+...+...|++++|...++...+....   +  ...+++.+...|... |++++|...|++
T Consensus        64 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~  143 (292)
T 1qqe_A           64 ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYEL  143 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            7652111000112568888888888889999998888877654211   1  134566667777775 777777777766


Q ss_pred             cccC-----C----hhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          178 LKRH-----N----TVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       178 ~~~~-----~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      ..+-     +    ..+++.+...+.+.|++++|+..|++..+.
T Consensus       144 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  187 (292)
T 1qqe_A          144 AGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            5421     1    234666667777777777777777776653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.19  E-value=1.8e-09  Score=88.43  Aligned_cols=199  Identities=8%  Similarity=-0.109  Sum_probs=113.8

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhc---CCCCC-HHHHHHHHHHHHhcCChhHHHHHHhhcCc-----CC----cc
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRV---NIKPT-LLFLNRLLLMHVSCGQLDTARQLFDEMPL-----RD----FN   78 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~---g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~----~~   78 (340)
                      .|......+...|++++|.+.|+......   |-+++ ..+|+.+..+|.+.|++++|+..|++..+     .+    ..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            45566666666777777777777665431   11111 45667777777777777777777766542     11    23


Q ss_pred             cHHHHHHHHHcc-cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchh----
Q 044786           79 SWAVMIVGYVDV-ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNIS----  153 (340)
Q Consensus        79 ~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----  153 (340)
                      +++.+...|... |++++|+..|++..+...+.........++..+...+.+.|++++|...|+...+........    
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            566666677774 777777777777766521000000013456667777777777777777777776654332211    


Q ss_pred             --HHHHHHHHHHhhcCHHHHHHHHHHcccCCh--------hhHHHHHHHHh--ccCchhHHHHHHHHHh
Q 044786          154 --LTGSLINFYGKFRCLEDADFVFSQLKRHNT--------VVWTAKIVNNC--REGHFHQVFNDFKEMG  210 (340)
Q Consensus       154 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~li~~~~--~~~~~~~a~~~~~~m~  210 (340)
                        .|..+..++...|++++|...|++..+-+.        ..+..++.++.  ..+++++|+..|+++.
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence              455566667777777777777777653211        12333444443  2345666666665543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.18  E-value=3.7e-09  Score=89.97  Aligned_cols=234  Identities=10%  Similarity=-0.005  Sum_probs=149.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCc-----CC----cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCcc-ccchH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPL-----RD----FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHML-LVFPA  117 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~  117 (340)
                      .+-.....+...|++++|.+.|++..+     ++    ..++..+...|...|+++.|...+++..+....... .....
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            333444556667777777777766542     11    224666677777777777777777776654322211 12357


Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHc----CCC-CchhHHHHHHHHHHhhcCHHHHHHHHHHccc-----C---Chh
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKL----GSS-RNISLTGSLINFYGKFRCLEDADFVFSQLKR-----H---NTV  184 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~---~~~  184 (340)
                      .+++.+...+...|++++|.+.++...+.    +.. ....++..+...|...|++++|.+.|++..+     .   ...
T Consensus       183 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  262 (378)
T 3q15_A          183 QSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPK  262 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHH
Confidence            77777777777777777777777766543    111 1234667777788888888888887777653     2   244


Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHHhhccc---CCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCc-cHHHHHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEMGRERI---KKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLES-DEYVQCG  259 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  259 (340)
                      ++..+...|.+.|++++|...+++..+..-   .|. ...+..+-..+...++. +........+.+.+..| ....+..
T Consensus       263 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~-~~~~~al~~~~~~~~~~~~~~~~~~  341 (378)
T 3q15_A          263 VLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDE-RKIHDLLSYFEKKNLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCH-HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcH-HHHHHHHHHHHhCCChhHHHHHHHH
Confidence            577777888888888888888888765321   121 23455555566666663 22444444444444444 3456678


Q ss_pred             HHHHHhccCCHHHHHHHHHHhhc
Q 044786          260 LVDMYGKCRLLRDAERVFELIVD  282 (340)
Q Consensus       260 li~~~~~~~~~~~A~~~~~~~~~  282 (340)
                      +...|.+.|++++|.+.|++...
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            88999999999999999988754

>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=99.16  E-value=1.3e-09  Score=85.68  Aligned_cols=149  Identities=13%  Similarity=-0.091  Sum_probs=122.2

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHhhcCc----CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHH
Q 044786           44 PTLLFLNRLLLMHVSCGQLDTARQLFDEMPL----RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        44 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      .|+..+......+.+.|++++|.+.|+...+    ++...+..+..++...|++++|++.|++..+..      +.+...
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~------p~~~~~   78 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN------YNLANA   78 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT------CSHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC------cchHHH
Confidence            3567888888889999999999999998763    556667778888999999999999999999874      567889


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcCCCCch-------hHHHHHHHHHHhhcCHHHHHHHHHHcccCC-----hhhHH
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNI-------SLTGSLINFYGKFRCLEDADFVFSQLKRHN-----TVVWT  187 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~  187 (340)
                      +..+...+...|++++|.+.++...+.... +.       ..|..+...+...|++++|.+.|++..+.+     ...|.
T Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~  157 (228)
T 4i17_A           79 YIGKSAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALY  157 (228)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHH
Confidence            999999999999999999999999887754 33       568888889999999999999999886542     34577


Q ss_pred             HHHHHHhccCch
Q 044786          188 AKIVNNCREGHF  199 (340)
Q Consensus       188 ~li~~~~~~~~~  199 (340)
                      .+..+|...|+.
T Consensus       158 ~l~~~~~~~~~~  169 (228)
T 4i17_A          158 SLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777776665

>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=99.15  E-value=2.1e-09  Score=76.53  Aligned_cols=127  Identities=15%  Similarity=0.082  Sum_probs=77.4

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYV   88 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~   88 (340)
                      .|..+...+...|++++|.++++.+.+. . +.+...+..+...+...|++++|...|+++..   .+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            4556666667777777777777777665 2 33555666666666666677777666666542   23345555666666


Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      ..|++++|.+.++++....      +.+..++..+...+.+.|++++|...++.+.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC------CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            6666666666666666552      233445555666666666666666666655544

>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=99.12  E-value=5.2e-09  Score=74.39  Aligned_cols=127  Identities=13%  Similarity=0.111  Sum_probs=89.6

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .|..+...+...|++++|.++++++.+..      +.+...+..+...+...|++++|...++.+.+.+.. +...+..+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l   75 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNL   75 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC------CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHH
Confidence            35566677777777777777777777663      345566667777777777777777777777766532 45566677


Q ss_pred             HHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          159 INFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      ...+...|++++|.+.++++.+   .+..++..+...+...|++++|...++++...
T Consensus        76 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           76 GNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            7777777788887777777643   24556777777788888888888888777653

>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=99.07  E-value=3.5e-09  Score=97.09  Aligned_cols=168  Identities=11%  Similarity=0.007  Sum_probs=120.9

Q ss_pred             hhccchhhHHHHHHHHH--------hhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHc
Q 044786           21 TFQKDSAGAFELLNHIR--------KRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVD   89 (340)
Q Consensus        21 ~~~~~~~~a~~~~~~m~--------~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~   89 (340)
                      ...|++++|++.++...        ..  .+.+...+..+...+.+.|++++|.+.|++..+   .+...|..+...+..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD--FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C--CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc--cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHH
Confidence            56778888888888877        32  344566777777888888888888888887763   345567777788888


Q ss_pred             ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH
Q 044786           90 VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE  169 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  169 (340)
                      .|++++|++.|++..+..      +-+...+..+..++.+.|++++ .+.|++..+.... +...|..+..+|.+.|+++
T Consensus       480 ~g~~~~A~~~~~~al~l~------P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~  551 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF------PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRV  551 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS------TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             cCCHHHHHHHHHHHHHhC------CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHH
Confidence            888888888888888773      3456677778888888888888 8888888777644 5667777888888888888


Q ss_pred             HHHHHHHHcccC---ChhhHHHHHHHHhccCc
Q 044786          170 DADFVFSQLKRH---NTVVWTAKIVNNCREGH  198 (340)
Q Consensus       170 ~a~~~~~~~~~~---~~~~~~~li~~~~~~~~  198 (340)
                      +|.+.|++..+.   +...|..+..++...++
T Consensus       552 ~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          552 GAVRTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            888888887643   34456666666655444

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.07  E-value=1.4e-08  Score=82.25  Aligned_cols=138  Identities=14%  Similarity=0.012  Sum_probs=61.7

Q ss_pred             HHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC-----CcccHHHHHHHHHcccChhHHHHHHHHH
Q 044786           29 AFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR-----DFNSWAVMIVGYVDVADYQECITLFAEM  103 (340)
Q Consensus        29 a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m  103 (340)
                      |+..|+..... + .++..++..+..++...|++++|++++.+....     +...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~~~-~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKD-K-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTT-S-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc-C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            34444444333 2 333344444445555555555555555554322     2223444555555555555555555555


Q ss_pred             HHhhcCCccccc-----hHHHHHHHHHHhhh--cc--chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHH
Q 044786          104 MKRKKGHMLLVF-----PAWIIVCVLKACVC--TM--NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFV  174 (340)
Q Consensus       104 ~~~~~~~~~~~~-----~~~~~~~ll~~~~~--~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (340)
                      .+.       .|     +..+...+..++..  .|  ++.+|..+|+++.+..  |+..+...++.++.+.|++++|++.
T Consensus       163 ~~~-------~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~  233 (310)
T 3mv2_B          163 TNA-------IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGI  233 (310)
T ss_dssp             HHH-------SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             Hhc-------CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHH
Confidence            444       34     23333334433221  12  4555555555544332  2212222233345555555555555


Q ss_pred             HHH
Q 044786          175 FSQ  177 (340)
Q Consensus       175 ~~~  177 (340)
                      ++.
T Consensus       234 L~~  236 (310)
T 3mv2_B          234 VEL  236 (310)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=99.06  E-value=1.1e-06  Score=79.68  Aligned_cols=211  Identities=10%  Similarity=-0.034  Sum_probs=154.4

Q ss_pred             HHHHHHHHHhhhccchhhHH-HHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc-------------CC-
Q 044786          118 WIIVCVLKACVCTMNMELGK-QVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR-------------HN-  182 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------------~~-  182 (340)
                      ..|......+...|+.++|. ++|+...... +.+...+-..+....+.|++++|.++|+.+.+             |+ 
T Consensus       344 ~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~  422 (679)
T 4e6h_A          344 EIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTN  422 (679)
T ss_dssp             HHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcc
Confidence            34444444455667888896 9999888754 34666677788888899999999999998764             21 


Q ss_pred             -----------hhhHHHHHHHHhccCchhHHHHHHHHHhhc-c-cCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhC
Q 044786          183 -----------TVVWTAKIVNNCREGHFHQVFNDFKEMGRE-R-IKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIG  249 (340)
Q Consensus       183 -----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~-~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~  249 (340)
                                 ...|...+....+.|..+.|..+|.+..+. + ..+......+.+.-.. .++.+. |..+++...+. 
T Consensus       423 ~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~-Ar~ife~~Lk~-  499 (679)
T 4e6h_A          423 ESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKT-ACKVLELGLKY-  499 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHH-HHHHHHHHHHH-
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHH-HHHHHHHHHHH-
Confidence                       235777888888889999999999999875 2 1222233333333222 344545 88888887776 


Q ss_pred             CCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC-C----cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHH
Q 044786          250 LESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK-K----NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLI  324 (340)
Q Consensus       250 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~  324 (340)
                      ++-++..|...++.....|+.+.|..+|++.... |    ....|...+.--.+.|+.+.+.++.+++.+.  .|+....
T Consensus       500 ~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~  577 (679)
T 4e6h_A          500 FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKL  577 (679)
T ss_dssp             HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHH
T ss_pred             CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHH
Confidence            4557777888899888999999999999998763 3    4568888988889999999999999999877  4666666


Q ss_pred             HHHHHHhhhc
Q 044786          325 NDLRIACSSI  334 (340)
Q Consensus       325 ~~ll~a~~~~  334 (340)
                      ..+.+-|.-.
T Consensus       578 ~~f~~ry~~~  587 (679)
T 4e6h_A          578 EEFTNKYKVL  587 (679)
T ss_dssp             HHHHHHTCBT
T ss_pred             HHHHHHhcCC
Confidence            6666655433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.04  E-value=5.6e-09  Score=83.92  Aligned_cols=96  Identities=13%  Similarity=-0.022  Sum_probs=69.0

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-C---ccc
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT---LLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-D---FNS   79 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~---~~~   79 (340)
                      ++..+-.....+.+.|++++|.+.|+.+...  .+.+   ...+..+..++.+.|++++|...|+...+  | +   ...
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTY--GRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGG--CSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3455556667777888888888888888776  2223   56777777888888888888888887763  2 1   124


Q ss_pred             HHHHHHHHHc--------ccChhHHHHHHHHHHHh
Q 044786           80 WAVMIVGYVD--------VADYQECITLFAEMMKR  106 (340)
Q Consensus        80 ~~~li~~~~~--------~g~~~~a~~~~~~m~~~  106 (340)
                      +..+..++..        .|++++|+..|++..+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            5566667777        88888888888888877

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.04  E-value=2.6e-08  Score=80.00  Aligned_cols=165  Identities=7%  Similarity=0.006  Sum_probs=117.8

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-C---cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchH
Q 044786           44 PTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-D---FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPA  117 (340)
Q Consensus        44 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  117 (340)
                      .+...+-.+...+.+.|++++|.+.|+.+..  | +   ...+..+..++.+.|++++|+..|++..+.....   +...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~---~~~~   89 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQID---PRVP   89 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---TTHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCC---chhH
Confidence            3566777788888999999999999999874  3 2   3457778889999999999999999999883111   2335


Q ss_pred             HHHHHHHHHhhh--------ccchhhHHHHHHHHHHcCCCCchhHH-----------------HHHHHHHHhhcCHHHHH
Q 044786          118 WIIVCVLKACVC--------TMNMELGKQVHGLLFKLGSSRNISLT-----------------GSLINFYGKFRCLEDAD  172 (340)
Q Consensus       118 ~~~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~  172 (340)
                      ..+..+..++..        .|++++|...|+.+.+..+. +....                 ..+...|.+.|++++|.
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  168 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAA  168 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHH
Confidence            577788888888        99999999999999887543 22222                 34456666677777777


Q ss_pred             HHHHHccc--CC----hhhHHHHHHHHhcc----------CchhHHHHHHHHHhhc
Q 044786          173 FVFSQLKR--HN----TVVWTAKIVNNCRE----------GHFHQVFNDFKEMGRE  212 (340)
Q Consensus       173 ~~~~~~~~--~~----~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~  212 (340)
                      ..|+.+.+  |+    ...+..+..+|...          |++++|...|++..+.
T Consensus       169 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          169 VTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            77766643  21    22455555566544          6667777777766653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.04  E-value=1.7e-08  Score=82.30  Aligned_cols=171  Identities=5%  Similarity=-0.106  Sum_probs=119.6

Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--cC-CcccHHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           31 ELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--LR-DFNSWAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        31 ~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      .+.+.+...  ++.+...+..+...+.+.|++++|.+.|++..  .| +...+..+...+...|++++|...+++.... 
T Consensus       104 ~l~~~l~~~--lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-  180 (287)
T 3qou_A          104 AIRALLDXV--LPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-  180 (287)
T ss_dssp             HHHHHHHHH--SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-
T ss_pred             HHHHHHHHH--cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-
Confidence            333444433  34455666677777788888888888888776  23 4456777788888888888888888887665 


Q ss_pred             cCCccccchHHH-HHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C---
Q 044786          108 KGHMLLVFPAWI-IVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H---  181 (340)
Q Consensus       108 ~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~---  181 (340)
                            .|+... .......+.+.++.+.|.+.++......+. +...+..+...|...|++++|...|.++.+  |   
T Consensus       181 ------~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~  253 (287)
T 3qou_A          181 ------DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAA  253 (287)
T ss_dssp             ------GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGG
T ss_pred             ------hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccc
Confidence                  344332 222333355667777788888877777643 667777888888888888888888888764  2   


Q ss_pred             ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          182 NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       182 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      +...+..+...+...|+.++|...|++-..
T Consensus       254 ~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          254 DGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             GGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            255688888888888888888888877543

>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=99.03  E-value=9.5e-09  Score=77.30  Aligned_cols=158  Identities=9%  Similarity=0.017  Sum_probs=90.7

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcc-cHHHHHH-H-HH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFN-SWAVMIV-G-YV   88 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~li~-~-~~   88 (340)
                      .+......+.+.|++++|...|+...+.  -+.+...+..+...+.+.|++++|...|+.....++. .+..+.. . +.
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELH   85 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHH
Confidence            3445556666777777777777776654  2335666777777777777777777777776632211 1111111 1 11


Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC-chhHHHHHHHHHHhhcC
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR-NISLTGSLINFYGKFRC  167 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  167 (340)
                      ..+...+|+..+++..+..      +-+...+..+...+...|++++|...++.+.+....+ +...+..+...+...|+
T Consensus        86 ~~~~~~~a~~~~~~al~~~------P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~  159 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN------PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQ  159 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCS
T ss_pred             hhcccchHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCC
Confidence            2223334566666666652      2345566666666666666666666666666554432 23455556666666666


Q ss_pred             HHHHHHHHHH
Q 044786          168 LEDADFVFSQ  177 (340)
Q Consensus       168 ~~~a~~~~~~  177 (340)
                      .++|...|++
T Consensus       160 ~~~A~~~y~~  169 (176)
T 2r5s_A          160 GNAIASKYRR  169 (176)
T ss_dssp             SCHHHHHHHH
T ss_pred             CCcHHHHHHH
Confidence            6666655554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.03  E-value=8.8e-08  Score=77.59  Aligned_cols=172  Identities=9%  Similarity=-0.013  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----ChhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          136 GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH-----NTVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       136 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      +...+++..+.+ .++..++..+..++...|++++|.+++.+....     +...+-..+..+.+.|+++.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            445555555444 334444456666677777777777777665322     34456666677777777777777777776


Q ss_pred             hcccCC-----ChhhHHHHHHhcc----cCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          211 RERIKK-----NSYTFSSVLKACG----GVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       211 ~~~~~p-----~~~t~~~ll~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      +.  .|     +..+...+..++.    ..++..+ +..+++.+...  .|+..+-..++.++.+.|++++|++.++.+.
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~-A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATS-NFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTH-HHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHH-HHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            53  45     2444444444421    1224434 56666665443  2332222233336777777777777776554


Q ss_pred             c------------CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          282 D------------KKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       282 ~------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .            +.|+.+.-.+|......|+  +|.++++++...
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            3            2255555444544445565  667777777655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.02  E-value=1.6e-08  Score=78.30  Aligned_cols=182  Identities=7%  Similarity=0.031  Sum_probs=115.4

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcc
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL-LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDV   90 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~   90 (340)
                      .+-.....+.+.|++++|.+.|+...+.   .|+. ..|..     ........          ......+.+...+.+.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~-----~~~~~~~~----------~~~~~~~~lg~~~~~~   67 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL---NIDRTEMYYW-----TNVDKNSE----------ISSKLATELALAYKKN   67 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CHHHHHHHHH-----HHSCTTSH----------HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHH-----hhhcchhh----------hhHHHHHHHHHHHHHC
Confidence            3334445566778888888888877765   3332 22211     00000000          0111233477778888


Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC--H
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC--L  168 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~  168 (340)
                      |++++|+..|++..+..      +-+...+..+...+...|++++|...|+...+..+. +...+..+...|...|+  .
T Consensus        68 g~~~~A~~~~~~al~~~------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~  140 (208)
T 3urz_A           68 RNYDKAYLFYKELLQKA------PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEK  140 (208)
T ss_dssp             TCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHH
Confidence            88888888888888874      445677888888888888888888888888887644 56677777777766554  4


Q ss_pred             HHHHHHHHHcccCChh--hHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhh
Q 044786          169 EDADFVFSQLKRHNTV--VWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYT  220 (340)
Q Consensus       169 ~~a~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  220 (340)
                      ..+...++....++..  .+.....++...|++++|...|++..+  +.|+...
T Consensus       141 ~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~  192 (208)
T 3urz_A          141 KKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEA  192 (208)
T ss_dssp             HHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHH
T ss_pred             HHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHH
Confidence            4566667666665443  233445566668889999999998887  3576543

>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=2.5e-08  Score=77.21  Aligned_cols=129  Identities=8%  Similarity=-0.080  Sum_probs=93.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      .....+.+..++.+.|++++|...|++..+   .+...|..+...+...|++++|+..|++..+..      +-+..++.
T Consensus        53 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------P~~~~a~~  126 (208)
T 3urz_A           53 SSKLATELALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE------ADNLAANI  126 (208)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC------TTCHHHHH
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC------CCCHHHHH
Confidence            344555688889999999999999998773   356678889999999999999999999999884      44567888


Q ss_pred             HHHHHhhhccc--hhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC
Q 044786          122 CVLKACVCTMN--MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH  181 (340)
Q Consensus       122 ~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (340)
                      .+...+...|.  .+.+...++...  ...|....+.....++...|++++|...|++..+.
T Consensus       127 ~lg~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          127 FLGNYYYLTAEQEKKKLETDYKKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            88888766654  344455555443  22333334444566677789999999999998754

>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=98.99  E-value=1.6e-08  Score=83.34  Aligned_cols=167  Identities=10%  Similarity=-0.004  Sum_probs=107.2

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHH
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFA  101 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  101 (340)
                      ..|++++|.+++++..+.  .+.+         .+...+++++|...|+..           ...|...|++++|...|.
T Consensus         3 ~~~~~~eA~~~~~~a~k~--~~~~---------~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~   60 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKY--LKTS---------FMKWKPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAYL   60 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHH--HCCC---------SSSCSCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHH--cccc---------ccCCCCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHH
Confidence            467889999999988875  2211         011147777777776553           556777888888888888


Q ss_pred             HHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC---CC--chhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786          102 EMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS---SR--NISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus       102 ~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      +..+..........-..+|..+...+...|++++|...++...+.-.   .+  ...++..+...|.. |++++|...|+
T Consensus        61 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~  139 (307)
T 2ifu_A           61 QEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQ  139 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            77765311100011244777777888888888888888877654311   11  13456666777777 77777777777


Q ss_pred             HcccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          177 QLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       177 ~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      +..+-         ...+++.+...|...|++++|+..|++..+
T Consensus       140 ~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  183 (307)
T 2ifu_A          140 QAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKS  183 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            65421         134566677777777777777777777654

>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=98.95  E-value=2.8e-08  Score=74.69  Aligned_cols=155  Identities=10%  Similarity=-0.032  Sum_probs=114.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           49 LNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        49 ~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      +..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..+++....       .|+...+.....
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~-------~p~~~~~~~~~~   81 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE-------YQDNSYKSLIAK   81 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG-------GCCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc-------cCChHHHHHHHH
Confidence            44556677889999999999999873   35567888889999999999999999988766       343333222211


Q ss_pred             H-hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC-----hhhHHHHHHHHhccCch
Q 044786          126 A-CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN-----TVVWTAKIVNNCREGHF  199 (340)
Q Consensus       126 ~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~li~~~~~~~~~  199 (340)
                      . +...+....+...++...+..+. +...+..+...+...|++++|...|+++.+.+     ...+..+...+...|+.
T Consensus        82 ~~~~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  160 (176)
T 2r5s_A           82 LELHQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQG  160 (176)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSS
T ss_pred             HHHHhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCC
Confidence            1 12223344567888888776543 57788888889999999999999998876432     44788888889999999


Q ss_pred             hHHHHHHHHHhh
Q 044786          200 HQVFNDFKEMGR  211 (340)
Q Consensus       200 ~~a~~~~~~m~~  211 (340)
                      ++|...|++...
T Consensus       161 ~~A~~~y~~al~  172 (176)
T 2r5s_A          161 NAIASKYRRQLY  172 (176)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            999988887653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.94  E-value=3.3e-08  Score=80.68  Aligned_cols=166  Identities=9%  Similarity=-0.011  Sum_probs=103.2

Q ss_pred             hHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHH
Q 044786           63 DTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGL  142 (340)
Q Consensus        63 ~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  142 (340)
                      +...+.+......+...+..+...+...|++++|...|++.....      +-+...+..+...+.+.|++++|...++.
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~------P~~~~a~~~la~~~~~~g~~~~A~~~l~~  176 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS------NQNGEIGLLLAETLIALNRSEDAEAVLXT  176 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT------TSCHHHHHHHHHHHHHTTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC------CcchhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            344444444444444556666667777777777777777777763      34555677777777777777777777776


Q ss_pred             HHHcCCCCchh-HHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC-C
Q 044786          143 LFKLGSSRNIS-LTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK-N  217 (340)
Q Consensus       143 ~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~  217 (340)
                      +.....  +.. ........+...++.++|...|++...  | +...+..+...+...|++++|+..|++..+..... +
T Consensus       177 ~~~~~p--~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~  254 (287)
T 3qou_A          177 IPLQDQ--DTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAAD  254 (287)
T ss_dssp             SCGGGC--SHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGG
T ss_pred             Cchhhc--chHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccc
Confidence            665543  222 222223335566666667777766542  2 55667777777777777777777777777643111 1


Q ss_pred             hhhHHHHHHhcccCCchhc
Q 044786          218 SYTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       218 ~~t~~~ll~~~~~~~~~~~  236 (340)
                      ...+..+...+...|+.++
T Consensus       255 ~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          255 GQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             GHHHHHHHHHHHHHCTTCH
T ss_pred             chHHHHHHHHHHHcCCCCc
Confidence            4456677777777777655

>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=98.94  E-value=1.8e-07  Score=72.59  Aligned_cols=179  Identities=8%  Similarity=-0.087  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC-ChhhHHHHHHHHhccC----chhHHHHHHHHHh
Q 044786          136 GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH-NTVVWTAKIVNNCREG----HFHQVFNDFKEMG  210 (340)
Q Consensus       136 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~~----~~~~a~~~~~~m~  210 (340)
                      |.+.|+...+.|   ++..+..+...|...+++++|.+.|++..+. +...+..+-..|.. +    ++++|+..|++..
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            334444444433   3444445555555555555555555554433 33444444444444 4    5555666555554


Q ss_pred             hcccCCChhhHHHHHHhccc----CCchhchHHHHHHHHHHhCCC-ccHHHHHHHHHHHhc----cCCHHHHHHHHHHhh
Q 044786          211 RERIKKNSYTFSSVLKACGG----VDDDGNCGRQMHANIVKIGLE-SDEYVQCGLVDMYGK----CRLLRDAERVFELIV  281 (340)
Q Consensus       211 ~~~~~p~~~t~~~ll~~~~~----~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~  281 (340)
                      +.|   +...+..+-..|..    .+++.+ +..+++...+.+.. .++..+..|-..|..    .+++++|.+.|++..
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~-A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAH-AITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHH-HHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHH-HHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            433   22333333334433    445434 44454444443321 124555566666666    678888888888887


Q ss_pred             cC-CcHHHHHHHHHHHHHc-C-----chHHHHHHHHHHHHcCCccchh
Q 044786          282 DK-KNIASWNAMLVGYIRN-G-----LYVEATKFLYLMKASGIQIQES  322 (340)
Q Consensus       282 ~~-~~~~~~~~li~~~~~~-~-----~~~~a~~~~~~m~~~g~~~~~~  322 (340)
                      .. ++...+..|...|... |     ++++|+.+|++..+.|...-..
T Consensus       157 ~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~A~~  204 (212)
T 3rjv_A          157 SLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDTGCE  204 (212)
T ss_dssp             HTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            65 5666777777777654 2     7888999988888887544333

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.92  E-value=8.6e-08  Score=75.13  Aligned_cols=180  Identities=9%  Similarity=-0.066  Sum_probs=89.5

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CCcc----cHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RDFN----SWAV   82 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~----~~~~   82 (340)
                      +..+......+.+.|++++|.+.|+.+.....-.| ....+..+..++.+.|++++|...|+++.+  |+..    .+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            33444555566667777777777777765511111 124555666666677777777777766652  2221    1222


Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhH--------
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISL--------  154 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------  154 (340)
                      +..++...|..     .+                 ..|..+.......|++++|...|+.+.+..+. +...        
T Consensus        84 ~g~~~~~~~~~-----~~-----------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l~  140 (225)
T 2yhc_A           84 RGLTNMALDDS-----AL-----------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRLV  140 (225)
T ss_dssp             HHHHHHHHHC------------------------------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHHH
T ss_pred             HHHHHHhhhhh-----hh-----------------hhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHH
Confidence            33333331100     00                 00000111112234455555555544443221 1111        


Q ss_pred             ---------HHHHHHHHHhhcCHHHHHHHHHHcccC--C----hhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          155 ---------TGSLINFYGKFRCLEDADFVFSQLKRH--N----TVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       155 ---------~~~l~~~~~~~~~~~~a~~~~~~~~~~--~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                               ...+...|.+.|++++|...|+++.+.  +    ...+..+..+|.+.|++++|.+.++.+...
T Consensus       141 ~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          141 FLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence                     123455666777777777777776532  2    134666677777777777777777766654

>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=98.92  E-value=9.1e-09  Score=75.19  Aligned_cols=135  Identities=6%  Similarity=-0.088  Sum_probs=64.8

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCC-HHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhH
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPT-LLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQE   95 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~   95 (340)
                      +...|++++|++.+......   .|+ ...+-.+...|.+.|++++|++.|++..   ..+..+|..+...|...|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~---~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS---PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS---HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhccc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHH
Confidence            33445555555555554432   222 2233344555555555555555555544   1234455555555555555555


Q ss_pred             HHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHH-HHHHHHcCCCCchhHHHHHHHHHHh
Q 044786           96 CITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQV-HGLLFKLGSSRNISLTGSLINFYGK  164 (340)
Q Consensus        96 a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~  164 (340)
                      |+..|++..+..      +-+..++..+...+.+.|+++++.+. ++...+..+. ++.+|......+..
T Consensus        84 A~~~~~~al~~~------p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~  146 (150)
T 4ga2_A           84 AVECYRRSVELN------PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDC  146 (150)
T ss_dssp             HHHHHHHHHHHC------TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHH
Confidence            555555555552      22344555555555555555444333 3444444322 33344443333333

>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=98.91  E-value=1.4e-08  Score=93.01  Aligned_cols=167  Identities=6%  Similarity=-0.052  Sum_probs=136.6

Q ss_pred             HhcCChhHHHHHHhhcC-----------cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           57 VSCGQLDTARQLFDEMP-----------LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        57 ~~~~~~~~a~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      ...|++++|++.+++..           ..+...+..+...+...|++++|++.|++..+..      +-+...+..+..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~------p~~~~a~~~lg~  475 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV------GWRWRLVWYRAV  475 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH------CCCHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC------cchHHHHHHHHH
Confidence            67799999999998876           3355678888899999999999999999999885      556778999999


Q ss_pred             HhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHH
Q 044786          126 ACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQV  202 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a  202 (340)
                      ++...|++++|.+.|++..+.... +...+..+..+|.+.|++++ .+.|++..+   .+...|..+..++.+.|++++|
T Consensus       476 ~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A  553 (681)
T 2pzi_A          476 AELLTGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGA  553 (681)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999999988644 56788889999999999999 999998763   3567889999999999999999


Q ss_pred             HHHHHHHhhcccCCC-hhhHHHHHHhcccCCc
Q 044786          203 FNDFKEMGRERIKKN-SYTFSSVLKACGGVDD  233 (340)
Q Consensus       203 ~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~  233 (340)
                      +..|++..+.  .|+ ...+..+..++...+.
T Consensus       554 ~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          554 VRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9999998774  465 4556666677766554

>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=98.91  E-value=8.9e-08  Score=74.15  Aligned_cols=127  Identities=10%  Similarity=-0.058  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHh
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKAC  127 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~  127 (340)
                      .+..+...+...|++++|.+.|++...++...|..+...+...|++++|++.|++.....      +.+...+..+..++
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD------KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------ccchHHHHHHHHHH
Confidence            345566677888999999999998887777788888888999999999999999988874      45667888888888


Q ss_pred             hhccchhhHHHHHHHHHHcCCCC---------------chhHHHHHHHHHHhhcCHHHHHHHHHHccc
Q 044786          128 VCTMNMELGKQVHGLLFKLGSSR---------------NISLTGSLINFYGKFRCLEDADFVFSQLKR  180 (340)
Q Consensus       128 ~~~~~~~~a~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (340)
                      ...|++++|.+.++...+.....               ....+..+..+|.+.|++++|.+.|+...+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            88888988888888887754321               124555666666666666666666666543

>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=98.88  E-value=1.4e-08  Score=74.13  Aligned_cols=109  Identities=6%  Similarity=-0.071  Sum_probs=54.6

Q ss_pred             HHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc
Q 044786           56 HVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN  132 (340)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (340)
                      +...|++++|++.++.....   +...+-.+...|.+.|++++|++.|++..+..      +-+..+|..+..++.+.|+
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~------p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ------ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCc
Confidence            33445555555555554432   22234445555555555555555555555552      2334455555555555555


Q ss_pred             hhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHH
Q 044786          133 MELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus       133 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (340)
                      +++|...|+...+..+. +...+..+...|.+.|++++|
T Consensus        81 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a  118 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGR  118 (150)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSH
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHH
Confidence            55555555555554322 344444444555555554443

>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=98.86  E-value=4.6e-08  Score=87.92  Aligned_cols=149  Identities=11%  Similarity=-0.029  Sum_probs=103.5

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITL   99 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~   99 (340)
                      .|++++|.+.+++..+.  .+.+...+..+...+.+.|++++|.+.|++..+.   +...|..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            46788888888887755  2345778888888888889999998888877632   445677888888888999999998


Q ss_pred             HHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh---cCHHHHHHHHH
Q 044786          100 FAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF---RCLEDADFVFS  176 (340)
Q Consensus       100 ~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~  176 (340)
                      +++..+..      +.+...+..+..++.+.|++++|.+.++...+.... +...+..+...+...   |++++|.+.++
T Consensus        80 ~~~al~~~------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~  152 (568)
T 2vsy_A           80 LQQASDAA------PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVR  152 (568)
T ss_dssp             HHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHH
T ss_pred             HHHHHhcC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            88888874      445678888888888888888888888888877543 566777888888888   88888888888


Q ss_pred             Hccc
Q 044786          177 QLKR  180 (340)
Q Consensus       177 ~~~~  180 (340)
                      +..+
T Consensus       153 ~al~  156 (568)
T 2vsy_A          153 AAVA  156 (568)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7653

>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=98.85  E-value=1.6e-07  Score=72.83  Aligned_cols=173  Identities=10%  Similarity=-0.061  Sum_probs=118.7

Q ss_pred             hHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC-CcccHHHHHHHHHccc----ChhHHHHHHHH
Q 044786           28 GAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR-DFNSWAVMIVGYVDVA----DYQECITLFAE  102 (340)
Q Consensus        28 ~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~g----~~~~a~~~~~~  102 (340)
                      +|.+.|+...+. |   ++..+..|-..|...+++++|.+.|++..+. +...+..|-..|.. +    ++++|.+.|++
T Consensus         4 eA~~~~~~aa~~-g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~   78 (212)
T 3rjv_A            4 EPGSQYQQQAEA-G---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEK   78 (212)
T ss_dssp             CTTHHHHHHHHT-T---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHC-C---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHH
Confidence            456667666665 4   5677777777787888888888888877644 55566667777766 5    78888888888


Q ss_pred             HHHhhcCCccccchHHHHHHHHHHhhh----ccchhhHHHHHHHHHHcCCC-CchhHHHHHHHHHHh----hcCHHHHHH
Q 044786          103 MMKRKKGHMLLVFPAWIIVCVLKACVC----TMNMELGKQVHGLLFKLGSS-RNISLTGSLINFYGK----FRCLEDADF  173 (340)
Q Consensus       103 m~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~  173 (340)
                      ..+.+        +...+..+...+..    .+++++|.+.|+...+.|.. .++..+..|...|..    .+++++|..
T Consensus        79 A~~~g--------~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           79 AVEAG--------SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHTT--------CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHCC--------CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            76552        34455566666665    66788888888877776632 125566677777777    677888888


Q ss_pred             HHHHccc--CChhhHHHHHHHHhcc-C-----chhHHHHHHHHHhhcc
Q 044786          174 VFSQLKR--HNTVVWTAKIVNNCRE-G-----HFHQVFNDFKEMGRER  213 (340)
Q Consensus       174 ~~~~~~~--~~~~~~~~li~~~~~~-~-----~~~~a~~~~~~m~~~~  213 (340)
                      .|++..+  .+...+..+-..|... |     ++++|...|++..+.|
T Consensus       151 ~~~~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          151 YFKGSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            8877653  3555666666666543 2     6778888887777765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.85  E-value=2.1e-07  Score=72.86  Aligned_cols=149  Identities=9%  Similarity=-0.037  Sum_probs=84.9

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHc
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL-LFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVD   89 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~   89 (340)
                      ..+..+..++.+.|++++|++.|+.+.+...-.+.. ..+-.+..++.+.+.-     .+        ..|..+...+..
T Consensus        42 ~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~-----~~--------~~~~~~~~~~~~  108 (225)
T 2yhc_A           42 QVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDS-----AL--------QGFFGVDRSDRD  108 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC---------------------------C
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhh-----hh--------hhhhccchhhcC
Confidence            567788889999999999999999999872212221 2344444444432210     00        011112222333


Q ss_pred             ccChhHHHHHHHHHHHhhcCCccccchHH------------------HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc
Q 044786           90 VADYQECITLFAEMMKRKKGHMLLVFPAW------------------IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN  151 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  151 (340)
                      .|++++|+..|+++.+..       |+..                  ....+...+.+.|++++|...|+.+.+......
T Consensus       109 ~~~~~~A~~~~~~~l~~~-------P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~  181 (225)
T 2yhc_A          109 PQQARAAFSDFSKLVRGY-------PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQ  181 (225)
T ss_dssp             CHHHHHHHHHHHHHHTTC-------TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSH
T ss_pred             cHHHHHHHHHHHHHHHHC-------cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCC
Confidence            444555555555544431       1110                  112345667778888888888888877643321


Q ss_pred             --hhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          152 --ISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       152 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                        ...+..+..+|.+.|++++|.+.++.+.
T Consensus       182 ~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~  211 (225)
T 2yhc_A          182 ATRDALPLMENAYRQMQMNAQAEKVAKIIA  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence              2456777888888888888888887765

>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=98.85  E-value=5.2e-07  Score=81.88  Aligned_cols=212  Identities=7%  Similarity=0.002  Sum_probs=131.0

Q ss_pred             CcchhHHHHHHhhhccchhhHH-HHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-------------
Q 044786            9 TTDMYTCLIKECTFQKDSAGAF-ELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-------------   74 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------------   74 (340)
                      .+..|-..++.+.+.|+.+.|. ++|+.....  ++.+...|-..+...-+.|+++.|.++|+.+..             
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~--~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~  419 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQC--IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDD  419 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhcc
Confidence            3445555555556667777775 777777654  555666666677777777778777777776652             


Q ss_pred             CC------------cccHHHHHHHHHcccChhHHHHHHHHHHHh-hcCCccccchHHHHHHHHHHhhhccchhhHHHHHH
Q 044786           75 RD------------FNSWAVMIVGYVDVADYQECITLFAEMMKR-KKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHG  141 (340)
Q Consensus        75 ~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  141 (340)
                      |+            ..+|-..+....+.|..+.|.++|.+.++. + ..   .+......+.+.... .++.+.|.++|+
T Consensus       420 p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~---~~~lyi~~A~lE~~~-~~d~e~Ar~ife  494 (679)
T 4e6h_A          420 PTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LV---TPDIYLENAYIEYHI-SKDTKTACKVLE  494 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GS---CTHHHHHHHHHHHTT-TSCCHHHHHHHH
T ss_pred             CcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CC---ChHHHHHHHHHHHHh-CCCHHHHHHHHH
Confidence            21            124666666666777777777777777665 2 11   222333233333221 244777777777


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC------hhhHHHHHHHHhccCchhHHHHHHHHHhhcccC
Q 044786          142 LLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN------TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIK  215 (340)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  215 (340)
                      ...+. ...+...+...++.....|+.+.|..+|+......      ...|...+.--.+.|+.+.+..+.+++.+.  .
T Consensus       495 ~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~  571 (679)
T 4e6h_A          495 LGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--F  571 (679)
T ss_dssp             HHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--S
T ss_pred             HHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            77665 22345555666676777777777887777765432      245666777666777777777777777764  4


Q ss_pred             CChhhHHHHHHhccc
Q 044786          216 KNSYTFSSVLKACGG  230 (340)
Q Consensus       216 p~~~t~~~ll~~~~~  230 (340)
                      |+......++.-|.-
T Consensus       572 P~~~~~~~f~~ry~~  586 (679)
T 4e6h_A          572 PEVNKLEEFTNKYKV  586 (679)
T ss_dssp             TTCCHHHHHHHHTCB
T ss_pred             CCCcHHHHHHHHhcC
Confidence            555555555555543

>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=98.83  E-value=4.7e-08  Score=87.86  Aligned_cols=148  Identities=5%  Similarity=-0.067  Sum_probs=115.3

Q ss_pred             cCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhh
Q 044786           59 CGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMEL  135 (340)
Q Consensus        59 ~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  135 (340)
                      .|++++|.+.|++..+.   +...|..+...+...|++++|.+.|++..+..      +.+...+..+...+...|++++
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------p~~~~~~~~lg~~~~~~g~~~~   75 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH------PGHPEAVARLGRVRWTQQRHAE   75 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS------TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHH
Confidence            47889999999988743   45578889999999999999999999999874      4567789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhcc---CchhHHHHHHHHH
Q 044786          136 GKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCRE---GHFHQVFNDFKEM  209 (340)
Q Consensus       136 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~---~~~~~a~~~~~~m  209 (340)
                      |.+.+++..+.... +...+..+..+|.+.|++++|.+.|++..+   .+...+..+...+...   |+.++|.+.+++.
T Consensus        76 A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           76 AAVLLQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            99999999988643 677899999999999999999999999753   3567888899999999   9999999999999


Q ss_pred             hhcc
Q 044786          210 GRER  213 (340)
Q Consensus       210 ~~~~  213 (340)
                      .+.+
T Consensus       155 l~~~  158 (568)
T 2vsy_A          155 VAQG  158 (568)
T ss_dssp             HHHT
T ss_pred             HhcC
Confidence            8754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.83  E-value=6e-08  Score=74.43  Aligned_cols=154  Identities=8%  Similarity=-0.044  Sum_probs=87.6

Q ss_pred             hcCChhHHHH---HHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchh
Q 044786           58 SCGQLDTARQ---LFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNME  134 (340)
Q Consensus        58 ~~~~~~~a~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  134 (340)
                      ..|++++|.+   .+..-......++..+...+...|++++|...+++................++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4456666666   3332111223345566666666666666666666666532111101233446666666777777777


Q ss_pred             hHHHHHHHHHHc----CCCC--chhHHHHHHHHHHhhcCHHHHHHHHHHccc-----CC----hhhHHHHHHHHhccCch
Q 044786          135 LGKQVHGLLFKL----GSSR--NISLTGSLINFYGKFRCLEDADFVFSQLKR-----HN----TVVWTAKIVNNCREGHF  199 (340)
Q Consensus       135 ~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~  199 (340)
                      +|...+++..+.    +-.+  ....+..+...+...|++++|...+++..+     .+    ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            777776665543    1111  234466667777777777777777766542     11    22356677777788888


Q ss_pred             hHHHHHHHHHhh
Q 044786          200 HQVFNDFKEMGR  211 (340)
Q Consensus       200 ~~a~~~~~~m~~  211 (340)
                      ++|...+++..+
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888777654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.79  E-value=2e-06  Score=70.15  Aligned_cols=150  Identities=11%  Similarity=0.124  Sum_probs=67.7

Q ss_pred             cchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHH--HHHHHHHHcccC---ChhhHHHHHHHHhccCc------h
Q 044786          131 MNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLE--DADFVFSQLKRH---NTVVWTAKIVNNCREGH------F  199 (340)
Q Consensus       131 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~---~~~~~~~li~~~~~~~~------~  199 (340)
                      +++++++++++.+.+.... +...|+--.-.+.+.|.++  ++.+.++++.+.   |...|+.-.....+.++      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhH
Confidence            3444444444444444322 3333333333333344444  445554444322   33344443333444343      5


Q ss_pred             hHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhC--CCccHHHHHHHHHHHhccCCHHHHHHHH
Q 044786          200 HQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIG--LESDEYVQCGLVDMYGKCRLLRDAERVF  277 (340)
Q Consensus       200 ~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~  277 (340)
                      +++++.++++.... +-|...|+-.-..+.+.|+..+....+...+...+  -+.++..+..+.+.|.+.|+.++|.+++
T Consensus       203 ~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          203 DEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            56666666655532 12344444444444444443332333333322211  1224455556666666666666666666


Q ss_pred             HHhhc
Q 044786          278 ELIVD  282 (340)
Q Consensus       278 ~~~~~  282 (340)
                      +.+..
T Consensus       282 ~~l~~  286 (306)
T 3dra_A          282 DLLKS  286 (306)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            66553

>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=98.79  E-value=1.5e-07  Score=77.49  Aligned_cols=161  Identities=9%  Similarity=0.019  Sum_probs=115.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcCc-----CC----cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHH
Q 044786           49 LNRLLLMHVSCGQLDTARQLFDEMPL-----RD----FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        49 ~~~li~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      |+.....|...|++++|.+.|++...     .+    ..+|+.+...|...|++++|+..|++..+.............+
T Consensus        39 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  118 (307)
T 2ifu_A           39 YAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMA  118 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34445567778888888888776552     11    2367778888888899999999998887653111101123457


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHHcCCCC-----chhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----C----hhh
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFKLGSSR-----NISLTGSLINFYGKFRCLEDADFVFSQLKRH-----N----TVV  185 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~----~~~  185 (340)
                      +..+...+.. |++++|...|++..+.....     ...++..+...|.+.|++++|...|++..+.     +    ...
T Consensus       119 ~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  197 (307)
T 2ifu_A          119 LDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKK  197 (307)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHH
Confidence            8888888888 99999999998776542111     1457788889999999999999999887532     1    225


Q ss_pred             HHHHHHHHhccCchhHHHHHHHHHh
Q 044786          186 WTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       186 ~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      +..+..++...|++++|...|++..
T Consensus       198 ~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          198 CIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            6667777778899999999999987

>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=98.71  E-value=5.3e-07  Score=69.74  Aligned_cols=133  Identities=12%  Similarity=0.052  Sum_probs=108.8

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYV   88 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~   88 (340)
                      .+..+...+...|++++|.+.|+..     +.|+...+..+...+.+.|++++|.+.|+....   .+...|..+...+.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            3456667788899999999999866     356889999999999999999999999998763   35567888999999


Q ss_pred             cccChhHHHHHHHHHHHhhcCCc----------cccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC
Q 044786           89 DVADYQECITLFAEMMKRKKGHM----------LLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS  149 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~----------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  149 (340)
                      ..|++++|++.|++..+...+..          ..+-....+..+..++...|++++|.+.++...+....
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            99999999999999998631110          00123478899999999999999999999999887644

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.71  E-value=7.2e-07  Score=72.90  Aligned_cols=158  Identities=9%  Similarity=0.033  Sum_probs=96.8

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC---Cc--hh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS---RN--IS  153 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~  153 (340)
                      .+...+..+...|++++|.+.+.+..+..............+..+...+...|++++|...++...+....   +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            45556777888899999999888887763110000011123344555666777888888888877654221   11  34


Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHccc-----CC-----hhhHHHHHHHHhccCchhHHHHHHHHHhhcc----cCCC-h
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKR-----HN-----TVVWTAKIVNNCREGHFHQVFNDFKEMGRER----IKKN-S  218 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~-~  218 (340)
                      +|+.+...|...|++++|...|++..+     ++     ..+++.+...|...|++++|+..+++..+..    ..+. .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            677778888888888888888777541     11     2467777778888888888888887765421    0000 2


Q ss_pred             hhHHHHHHhcccCCchhc
Q 044786          219 YTFSSVLKACGGVDDDGN  236 (340)
Q Consensus       219 ~t~~~ll~~~~~~~~~~~  236 (340)
                      .+|..+-..+...|+.++
T Consensus       237 ~~~~~lg~~y~~~g~~~~  254 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEA  254 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHHHHHHHcCCcHH
Confidence            334444445555555544

>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=98.70  E-value=6.9e-07  Score=73.01  Aligned_cols=161  Identities=6%  Similarity=-0.006  Sum_probs=103.2

Q ss_pred             HHHHHHHhcCChhHHHHHHhhcCcCCc---c------cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHH
Q 044786           51 RLLLMHVSCGQLDTARQLFDEMPLRDF---N------SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIV  121 (340)
Q Consensus        51 ~li~~~~~~~~~~~a~~~~~~~~~~~~---~------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~  121 (340)
                      ..+..+.+.|++++|.++++...+...   .      .+..+...+...|++++|+..|++................+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            335667778888888888877653211   1      2233555666677888888888888774211100011133677


Q ss_pred             HHHHHhhhccchhhHHHHHHHHHHc-----CCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC---------ChhhH
Q 044786          122 CVLKACVCTMNMELGKQVHGLLFKL-----GSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH---------NTVVW  186 (340)
Q Consensus       122 ~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~  186 (340)
                      .+...+...|++++|...++.+.+.     +..+ ...++..+...|.+.|++++|...+++..+-         -..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            8888888888888888888777631     1111 2236677777888888888888877765421         14567


Q ss_pred             HHHHHHHhccCc-hhHHHHHHHHHhh
Q 044786          187 TAKIVNNCREGH-FHQVFNDFKEMGR  211 (340)
Q Consensus       187 ~~li~~~~~~~~-~~~a~~~~~~m~~  211 (340)
                      ..+..+|...|+ +++|...+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            777777777774 5778777777653

>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=98.69  E-value=6.3e-07  Score=66.12  Aligned_cols=93  Identities=6%  Similarity=0.025  Sum_probs=52.7

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYV   88 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~   88 (340)
                      .+..+...+...|+++.|...|+.....  .+.+...+..+...+...|++++|.+.|++...   .+...|..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3444555555666666666666666654  233455555566666666666666666655441   23334555555566


Q ss_pred             cccChhHHHHHHHHHHHh
Q 044786           89 DVADYQECITLFAEMMKR  106 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~  106 (340)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh
Confidence            666666666666666555

>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=98.69  E-value=4.4e-07  Score=74.16  Aligned_cols=164  Identities=10%  Similarity=-0.024  Sum_probs=122.6

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcCc-----CCc----ccHH
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNIKPTL----LFLNRLLLMHVSCGQLDTARQLFDEMPL-----RDF----NSWA   81 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~----~~~~   81 (340)
                      ..+..+...|++++|.++++.........|+.    ..+..+...+...+++++|++.|+....     ++.    .+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            34677788999999999999998762333442    2344567777788899999999988753     222    1588


Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCcccc-chHHHHHHHHHHhhhccchhhHHHHHHHHHHcC----CCC-chhHH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLV-FPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG----SSR-NISLT  155 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~  155 (340)
                      .+...|...|++++|+..|++..+.-...+... ....++..+...+.+.|++++|...++...+..    ..+ -..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            899999999999999999999986321110012 233488999999999999999999998876542    222 25688


Q ss_pred             HHHHHHHHhhcC-HHHHHHHHHHc
Q 044786          156 GSLINFYGKFRC-LEDADFVFSQL  178 (340)
Q Consensus       156 ~~l~~~~~~~~~-~~~a~~~~~~~  178 (340)
                      ..+..+|.+.|+ +++|.+.|++.
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHH
Confidence            889999999994 69998887764

>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=98.69  E-value=2.1e-07  Score=75.55  Aligned_cols=190  Identities=7%  Similarity=-0.056  Sum_probs=129.5

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMI   84 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li   84 (340)
                      .+...+..+...+.+.|++++|.+.|+.....  .+.+...|..+..++.+.|++++|.+.++...+.   +...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            45677888889999999999999999999987  3447889999999999999999999999998743   455788899


Q ss_pred             HHHHcccChhHHHHHHHHHHHhhcCCccccchH-HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           85 VGYVDVADYQECITLFAEMMKRKKGHMLLVFPA-WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      .++...|++++|++.|++..+..       |+. ..+...+....+.   ..... +..........+......+...  
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~-------p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l--  146 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA-------KEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRL--  146 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH-------HHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHH--
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-------ccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHH--
Confidence            99999999999999999998873       221 0111111111111   11111 1223333344444444444332  


Q ss_pred             hhcCHHHHHHHHHHcccCC---hhhHHHHHHHHhcc-CchhHHHHHHHHHhhc
Q 044786          164 KFRCLEDADFVFSQLKRHN---TVVWTAKIVNNCRE-GHFHQVFNDFKEMGRE  212 (340)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~  212 (340)
                      ..|++++|.+.++...+.+   ......+-..+.+. +.+++|.++|++..+.
T Consensus       147 ~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          147 IAAERERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            2689999999888876543   22333333334443 6788999999888653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.67  E-value=3e-05  Score=63.27  Aligned_cols=229  Identities=7%  Similarity=-0.091  Sum_probs=168.4

Q ss_pred             hcc-chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHhhcCcC---CcccHHHHHHHH----Hcc-
Q 044786           22 FQK-DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG--QLDTARQLFDEMPLR---DFNSWAVMIVGY----VDV-   90 (340)
Q Consensus        22 ~~~-~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~---~~~~~~~li~~~----~~~-   90 (340)
                      +.| ..++|+++++.+...  -+-+...|+.--..+...|  +++++++.++.+...   +..+|+.--..+    ... 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhcc
Confidence            444 456899999999977  3445677888778888888  999999999998743   445666544444    444 


Q ss_pred             --cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchh--hHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           91 --ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNME--LGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        91 --g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                        +++++++++++++.+..      +-+..+|+.-.-...+.|.++  ++++.++.+.+..+. |...|+--...+...+
T Consensus       122 ~~~~~~~EL~~~~~~l~~~------pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSD------PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSG
T ss_pred             ccCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcc
Confidence              78999999999999985      567778887777777788888  999999999998765 6667766666666666


Q ss_pred             C------HHHHHHHHHHccc---CChhhHHHHHHHHhccCchhH-HHHHHHHHhhcc--cCCChhhHHHHHHhcccCCch
Q 044786          167 C------LEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQ-VFNDFKEMGRER--IKKNSYTFSSVLKACGGVDDD  234 (340)
Q Consensus       167 ~------~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~~--~~p~~~t~~~ll~~~~~~~~~  234 (340)
                      +      ++++.+.++.+..   .|...|+-+-..+.+.|+..+ +..+..+..+.+  -..+...+..+...+.+.|+.
T Consensus       195 ~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~  274 (306)
T 3dra_A          195 HLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKY  274 (306)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCH
T ss_pred             ccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCH
Confidence            6      8888888887653   377889888888888887554 556777766533  133567788888889999998


Q ss_pred             hchHHHHHHHHHHhCCCccHHHHHHH
Q 044786          235 GNCGRQMHANIVKIGLESDEYVQCGL  260 (340)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~l  260 (340)
                      ++ |..+++.+...--+.....|+..
T Consensus       275 ~~-A~~~~~~l~~~~Dpir~~yW~~~  299 (306)
T 3dra_A          275 NE-SRTVYDLLKSKYNPIRSNFWDYQ  299 (306)
T ss_dssp             HH-HHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HH-HHHHHHHHHhccChHHHHHHHHH
Confidence            77 88888877653223344455443

>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=98.65  E-value=9.3e-07  Score=65.17  Aligned_cols=124  Identities=9%  Similarity=-0.027  Sum_probs=61.4

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      |..+...+...|++++|...|++.....      +.+..++..+...+...|++++|...++...+.... +...+..+.
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a   88 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN------PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRA   88 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHH
Confidence            4444444555555555555555555442      223444555555555555555555555555544321 344455555


Q ss_pred             HHHHhhcCHHHHHHHHHHcccC---ChhhHHH--HHHHHhccCchhHHHHHHHHHh
Q 044786          160 NFYGKFRCLEDADFVFSQLKRH---NTVVWTA--KIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~--li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      .++...|++++|...|++..+.   +...+..  ....+...|++++|+..+.+..
T Consensus        89 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           89 ASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            5555555555555555554321   2222322  2222445566666666665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.65  E-value=5.7e-07  Score=62.62  Aligned_cols=94  Identities=16%  Similarity=0.146  Sum_probs=51.8

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGY   87 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   87 (340)
                      ..|..+...+...|++++|.+.++.+.+.  .+.+..++..+...+.+.|++++|...|+++..   .+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            44555555566666666666666666554  233455555555555556666666655555441   2333455555555


Q ss_pred             HcccChhHHHHHHHHHHHh
Q 044786           88 VDVADYQECITLFAEMMKR  106 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~  106 (340)
                      ...|++++|.+.++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            5555555555555555554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.65  E-value=1.9e-07  Score=68.01  Aligned_cols=27  Identities=7%  Similarity=0.034  Sum_probs=11.7

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +..+...+.+.|++++|++.|++....
T Consensus        39 ~~~lg~~~~~~g~~~eA~~~~~~al~~   65 (151)
T 3gyz_A           39 IYSYAYDFYNKGRIEEAEVFFRFLCIY   65 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            333334444444444444444444444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=9.3e-07  Score=61.52  Aligned_cols=96  Identities=14%  Similarity=0.080  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHH
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      ...+..+...+.+.|++++|.+.|+++..   .+..++..+...+...|++++|...++++....      +.+..++..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~   82 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD------PNNAEAWYN   82 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC------CccHHHHHH
Confidence            34555555556666666666666655542   233345555555666666666666666655552      234445555


Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcC
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      +...+...|++++|...++.+.+..
T Consensus        83 la~~~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           83 LGNAYYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            5555555566666666655555543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.63  E-value=3.6e-07  Score=64.26  Aligned_cols=114  Identities=9%  Similarity=-0.062  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHH
Q 044786           47 LFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV  123 (340)
Q Consensus        47 ~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l  123 (340)
                      ..+..+...+...|++++|.+.|++...   .+...+..+...+...|++++|.+.+++.....      +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~   86 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID------PAYSKAYGRM   86 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC------ccCHHHHHHH
Confidence            3344444444444555555544444331   123344444445555555555555555555442      2234444555


Q ss_pred             HHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC  167 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (340)
                      ...+...|++++|...++...+.... +...+..+..++.+.|+
T Consensus        87 ~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           87 GLALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhc
Confidence            55555555555555555555544432 33444444444444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.63  E-value=1.9e-06  Score=70.32  Aligned_cols=167  Identities=5%  Similarity=-0.042  Sum_probs=120.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcC--Cc-------ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccc
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLR--DF-------NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVF  115 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  115 (340)
                      ....+...+..+...|++++|.+.++...+.  ..       ..+..+...+...|++++|+..+++............-
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            4567777788888999999999988765422  11       12334556677888999999999988764211110111


Q ss_pred             hHHHHHHHHHHhhhccchhhHHHHHHHHH---HcCC-CC--chhHHHHHHHHHHhhcCHHHHHHHHHHcccC--------
Q 044786          116 PAWIIVCVLKACVCTMNMELGKQVHGLLF---KLGS-SR--NISLTGSLINFYGKFRCLEDADFVFSQLKRH--------  181 (340)
Q Consensus       116 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------  181 (340)
                      ...+++.+...+...|++++|...++...   +... .+  ...++..+...|.+.|++++|...+++..+-        
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence            25699999999999999999999998775   4322 11  1257888899999999999999998876421        


Q ss_pred             -ChhhHHHHHHHHhccCchhHH-HHHHHHHhh
Q 044786          182 -NTVVWTAKIVNNCREGHFHQV-FNDFKEMGR  211 (340)
Q Consensus       182 -~~~~~~~li~~~~~~~~~~~a-~~~~~~m~~  211 (340)
                       -..+|..+...|...|++++| ...+++...
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence             145688888999999999999 777777653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.63  E-value=7.7e-07  Score=62.65  Aligned_cols=92  Identities=7%  Similarity=-0.055  Sum_probs=41.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           49 LNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        49 ~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      +......+.+.|++++|++.|++..   ..+...|..+..++.+.|++++|+..|++.++.+      +.+...|..+..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~------p~~~~a~~~lg~   89 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD------SKFIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh------hhhhHHHHHHHH
Confidence            3344444444444444444444433   1133344444444444455555555554444442      223334444444


Q ss_pred             HhhhccchhhHHHHHHHHHHc
Q 044786          126 ACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus       126 ~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      ++...|++++|.+.|+...+.
T Consensus        90 ~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            444444444444444444444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.62  E-value=6.3e-07  Score=63.33  Aligned_cols=95  Identities=12%  Similarity=0.074  Sum_probs=44.8

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ...|..+...+.+.|++++|.+.|+...+.  .+.+...+..+...+...|++++|.+.|++..+   .+...+..+...
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            334444555555555555555555555443  122344444444455555555555555544431   122334444444


Q ss_pred             HHcccChhHHHHHHHHHHHh
Q 044786           87 YVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +...|++++|.+.|++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            44555555555555544444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.61  E-value=6.7e-05  Score=65.86  Aligned_cols=288  Identities=8%  Similarity=0.009  Sum_probs=166.5

Q ss_pred             CCcchhHHHHHHhhhccc-hhhHHHHHHHHHhhcCC-CCCHHHHHHHHHHHH----hcCChhHHHHHHhhcCc-CCcc--
Q 044786            8 ITTDMYTCLIKECTFQKD-SAGAFELLNHIRKRVNI-KPTLLFLNRLLLMHV----SCGQLDTARQLFDEMPL-RDFN--   78 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~g~-~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~-~~~~--   78 (340)
                      |+...|...+....+.++ .+....+|+......|. +++...|...+..+.    ..++++.+.++|++... |...  
T Consensus        45 ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~  124 (493)
T 2uy1_A           45 YNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLS  124 (493)
T ss_dssp             CCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHH
T ss_pred             CCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHH
Confidence            566677776666666553 35566677776665343 235566666665543    23556667777766542 1100  


Q ss_pred             -------------------------------------------------cHHHHHHHHHcc--c-----ChhHHHHHHHH
Q 044786           79 -------------------------------------------------SWAVMIVGYVDV--A-----DYQECITLFAE  102 (340)
Q Consensus        79 -------------------------------------------------~~~~li~~~~~~--g-----~~~~a~~~~~~  102 (340)
                                                                       .|...+.--...  |     ..+.+..+|++
T Consensus       125 ~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~  204 (493)
T 2uy1_A          125 ELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNY  204 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHH
Confidence                                                             111111111010  0     02234456666


Q ss_pred             HHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHH-HHHHHHcc--
Q 044786          103 MMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA-DFVFSQLK--  179 (340)
Q Consensus       103 m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~--  179 (340)
                      .+...      +.+...|...+..+.+.|+.+.|..++++....  +.+...+.    .|....+.++. ..+.+...  
T Consensus       205 al~~~------p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~~~~l~~~~~~~  272 (493)
T 2uy1_A          205 ILDSF------YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAVYGDLKRKYSMG  272 (493)
T ss_dssp             HHHHT------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHHHHHHHHHTC--
T ss_pred             HHHcC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHHHHHHHHHHHhh
Confidence            55542      344556666666677778888888888888877  22332222    12222111111 11111110  


Q ss_pred             ----------cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHH--HHHHhcccCCchhchHHHHHHHHHH
Q 044786          180 ----------RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFS--SVLKACGGVDDDGNCGRQMHANIVK  247 (340)
Q Consensus       180 ----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~--~ll~~~~~~~~~~~~~~~~~~~~~~  247 (340)
                                ......|...+....+.+..+.|..+|++. +. ..++...|.  +.+.... .++.+. +..+++...+
T Consensus       273 ~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~-~~d~~~-ar~ife~al~  348 (493)
T 2uy1_A          273 EAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYA-TGSRAT-PYNIFSSGLL  348 (493)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHH-HCCSHH-HHHHHHHHHH
T ss_pred             ccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHH-CCChHH-HHHHHHHHHH
Confidence                      001234666677776788899999999998 32 112333332  2222222 224544 8888888777


Q ss_pred             hCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          248 IGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       248 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      .. +-++..+...++...+.|+.+.|..+|+++.  .....|...+.--...|+.+.+.+++++...
T Consensus       349 ~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          349 KH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            53 3345567778888889999999999999984  4677888888887888999999998888764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.60  E-value=9.7e-07  Score=62.33  Aligned_cols=115  Identities=12%  Similarity=-0.011  Sum_probs=69.9

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHH
Q 044786           44 PTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWII  120 (340)
Q Consensus        44 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~  120 (340)
                      .+...+..+...+.+.|++++|.+.|++....   +...+..+...+...|++++|++.+++..+..      +.+...+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~------~~~~~~~   87 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE------PTFIKGY   87 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC------TTCHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC------CCchHHH
Confidence            34556666667777777777777777765422   34456666666777777777777777776663      3345566


Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786          121 VCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus       121 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      ..+...+...|++++|.+.++...+.... +...+..+..++.+.
T Consensus        88 ~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           88 TRKAAALEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHh
Confidence            66666666667777777776666655322 233444444444433

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.60  E-value=1.1e-06  Score=61.86  Aligned_cols=96  Identities=9%  Similarity=0.023  Sum_probs=84.9

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~   86 (340)
                      ...+...-..+.+.|++++|++.|+...+.  -+.+...|..+..++.+.|++++|++.|++..   ..+...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            346777888899999999999999999987  35578899999999999999999999999876   3356689999999


Q ss_pred             HHcccChhHHHHHHHHHHHhh
Q 044786           87 YVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      +...|++++|++.|++.++..
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHCCCHHHHHHHHHHHHHHC
Confidence            999999999999999999983

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.60  E-value=7e-07  Score=62.74  Aligned_cols=92  Identities=8%  Similarity=-0.043  Sum_probs=43.2

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      +..+...+...|++++|...|++.....      +.+...+..+...+...|++++|...++...+.... +...+..+.
T Consensus        15 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~   87 (131)
T 2vyi_A           15 LKTEGNEQMKVENFEAAVHFYGKAIELN------PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHcC------CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHH
Confidence            3444444445555555555555554442      223344444445555555555555555544444321 334444444


Q ss_pred             HHHHhhcCHHHHHHHHHHc
Q 044786          160 NFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~  178 (340)
                      ..+...|++++|...|++.
T Consensus        88 ~~~~~~~~~~~A~~~~~~~  106 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKA  106 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHH
Confidence            4555555555555555443

>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=98.60  E-value=6.9e-07  Score=66.95  Aligned_cols=121  Identities=7%  Similarity=0.017  Sum_probs=88.3

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH-HHcccCh--
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG-YVDVADY--   93 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~-~~~~g~~--   93 (340)
                      +...|++++|.+.++.....  .+.+...+..+...+...|++++|...|++...   .+...+..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            45678888888888888776  345677888888888888888888888887762   355566667777 6678887  


Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      ++|...+++..+..      +.+...+..+...+...|++++|...++...+...
T Consensus        98 ~~A~~~~~~al~~~------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           98 AQTRAMIDKALALD------SNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            88888888888773      34456777778888888888888888888777653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.59  E-value=9.2e-07  Score=67.66  Aligned_cols=154  Identities=10%  Similarity=0.036  Sum_probs=83.5

Q ss_pred             hccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc------C---ChhhHHHHHHHHhccCch
Q 044786          129 CTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR------H---NTVVWTAKIVNNCREGHF  199 (340)
Q Consensus       129 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------~---~~~~~~~li~~~~~~~~~  199 (340)
                      ..|++++|.++++.+.. .......++..+...+...|++++|...+++..+      .   ...++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            45666666664443322 1122445555666666666666666666655432      1   223455555555555565


Q ss_pred             hHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCC--ccHHHHHHHHHHHhccCCHHHHHHHH
Q 044786          200 HQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLE--SDEYVQCGLVDMYGKCRLLRDAERVF  277 (340)
Q Consensus       200 ~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~  277 (340)
                      ++|...+++..+.                                ....+-.  .....+..+...+...|++++|...+
T Consensus        83 ~~A~~~~~~al~~--------------------------------~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~  130 (203)
T 3gw4_A           83 DAARRCFLEEREL--------------------------------LASLPEDPLAASANAYEVATVALHFGDLAGARQEY  130 (203)
T ss_dssp             HHHHHHHHHHHHH--------------------------------HHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--------------------------------HHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            5555555554331                                0001101  12334556666777778888887777


Q ss_pred             HHhhc----CCc----HHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          278 ELIVD----KKN----IASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       278 ~~~~~----~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      ++...    .++    ..++..+...+...|++++|.+.+++..+.
T Consensus       131 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          131 EKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            76653    122    234566777788888888888887776543

>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=98.57  E-value=2.5e-06  Score=69.26  Aligned_cols=189  Identities=5%  Similarity=-0.081  Sum_probs=110.0

Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHH
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNN  193 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~  193 (340)
                      ...+..+...+.+.|++++|...|+...+.... +...|..+..+|.+.|++++|...+++..+.   +...+..+..+|
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            445556666666677777777777766665432 5566677777777777777777777776542   455677777788


Q ss_pred             hccCchhHHHHHHHHHhhcccCCCh-hhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHH
Q 044786          194 CREGHFHQVFNDFKEMGRERIKKNS-YTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRD  272 (340)
Q Consensus       194 ~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  272 (340)
                      ...|++++|...|++..+..  |+. ..+...+....+..     -..-+........+.+......+-..  ..|+.++
T Consensus        83 ~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRIA-----KKKRWNSIEERRIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHHH-----HHHHHHHHHHTCCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHHH-----HHHHHHHHHHHHHhhhHHHHHHHHHH--HHHHHHH
Confidence            88888888888887776532  221 01111111111100     11112222333444455554444332  2688899


Q ss_pred             HHHHHHHhhc-CC-cHHHHHHHHHHHHHc-CchHHHHHHHHHHHHc
Q 044786          273 AERVFELIVD-KK-NIASWNAMLVGYIRN-GLYVEATKFLYLMKAS  315 (340)
Q Consensus       273 A~~~~~~~~~-~~-~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~  315 (340)
                      |.+.++.... .| +......+-..+.+. +.+++|.++|++..+.
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9988887765 34 334444444444444 6688899999877543

>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=98.55  E-value=5e-07  Score=67.71  Aligned_cols=118  Identities=5%  Similarity=-0.002  Sum_probs=81.9

Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH-HHhhc
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF-YGKFR  166 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~  166 (340)
                      ...|++++|+..+++.....      +.+...+..+...+...|++++|...++...+.... +...+..+..+ +...|
T Consensus        21 ~~~~~~~~A~~~~~~al~~~------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~   93 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN------PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQAS   93 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC------CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTT
T ss_pred             hhccCHHHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcC
Confidence            45677777777887777763      445567777777778888888888888777766533 45566666666 66777


Q ss_pred             CH--HHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          167 CL--EDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       167 ~~--~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      ++  ++|...|++..+   .+...+..+...|...|++++|...|++..+.
T Consensus        94 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           94 QHMTAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             TCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            77  888888877653   24566777778888888888888888887764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.54  E-value=6.3e-07  Score=65.22  Aligned_cols=122  Identities=10%  Similarity=0.020  Sum_probs=91.8

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHH
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGY   87 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   87 (340)
                      ....+.+.+...+.+++++          .+.| +...+..+...+.+.|++++|.+.|++...   .+...|..+..++
T Consensus        11 ~~~~l~~~~~~~~~l~~al----------~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~   80 (151)
T 3gyz_A           11 ISTAVIDAINSGATLKDIN----------AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIY   80 (151)
T ss_dssp             HHHHHHHHHHTSCCTGGGC----------CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHh----------CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3445555555444444432          3344 345677777888889999999999988772   3566788888889


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS  149 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  149 (340)
                      ...|++++|+..|++.....      +-+...|..+..++.+.|++++|...|+...+....
T Consensus        81 ~~~g~~~~Ai~~~~~al~l~------P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A           81 QIKEQFQQAADLYAVAFALG------KNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS------SSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHccHHHHHHHHHHHHhhC------CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999998884      456778888999999999999999999988888643

>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=98.53  E-value=1.6e-06  Score=72.26  Aligned_cols=91  Identities=12%  Similarity=-0.075  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHh
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNC  194 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~  194 (340)
                      ..|..+..++.+.|++++|...++...+.... +...|..+..+|...|++++|...|++..+   .+...+..+..++.
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            44444555555555555555555555444322 344444555555555555555555554431   13344455555555


Q ss_pred             ccCchhHH-HHHHHHH
Q 044786          195 REGHFHQV-FNDFKEM  209 (340)
Q Consensus       195 ~~~~~~~a-~~~~~~m  209 (340)
                      ..|+.++| ..+|+.|
T Consensus       276 ~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          276 RIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            55555555 3344444

>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=98.50  E-value=2.2e-06  Score=71.49  Aligned_cols=149  Identities=10%  Similarity=0.024  Sum_probs=119.0

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC--cCC----------------cccHHHH
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP--LRD----------------FNSWAVM   83 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~~----------------~~~~~~l   83 (340)
                      ..+++++|.+.|+.....  -+-+...+..+...+.+.|++++|...|++..  .|+                ..+|..+
T Consensus       125 ~L~~~~~A~~~~~~a~~~--~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nl  202 (336)
T 1p5q_A          125 HLKSFEKAKESWEMNSEE--KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNL  202 (336)
T ss_dssp             EEEEEECCCCGGGCCHHH--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             EEeecccccchhcCCHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHH
Confidence            455677777666655433  12256788888889999999999999998876  233                3678889


Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      ..++.+.|++++|+..+++.++..      +.+...+..+..++...|++++|...|+...+.... +...+..+..++.
T Consensus       203 a~~~~~~g~~~~A~~~~~~al~~~------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~  275 (336)
T 1p5q_A          203 AMCHLKLQAFSAAIESCNKALELD------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            999999999999999999999884      456778999999999999999999999999988865 6778888999999


Q ss_pred             hhcCHHHH-HHHHHHcc
Q 044786          164 KFRCLEDA-DFVFSQLK  179 (340)
Q Consensus       164 ~~~~~~~a-~~~~~~~~  179 (340)
                      +.|+.++| ...|+.|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999988 44666654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.49  E-value=2.8e-06  Score=73.31  Aligned_cols=195  Identities=9%  Similarity=0.006  Sum_probs=142.6

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCC---------------HHHHHHHHHHHHhcCChhHHHHHHhhcCcC-----C
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPT---------------LLFLNRLLLMHVSCGQLDTARQLFDEMPLR-----D   76 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~---------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~   76 (340)
                      .+.+.+.|++++|++.|..+.+...-..+               ...+..+...|...|++++|.+.+....+.     +
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            45567889999999999999876211111               134778899999999999999999887621     1


Q ss_pred             c----ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC----
Q 044786           77 F----NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS----  148 (340)
Q Consensus        77 ~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----  148 (340)
                      .    .+.+.+-..+...|+++.|.+++++.............-..++..+...+...|++++|..+++.+...-.    
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    12333444455678999999999988765311111133456888999999999999999999998765421    


Q ss_pred             CC-chhHHHHHHHHHHhhcCHHHHHHHHHHcccC-----C-----hhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          149 SR-NISLTGSLINFYGKFRCLEDADFVFSQLKRH-----N-----TVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       149 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      .+ ...++..++..|...|++++|..++++....     +     ...+..+...+...|++++|...|.+..+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            11 2457888999999999999999999876421     1     24567777888889999999998888754

>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=98.47  E-value=3.4e-07  Score=70.09  Aligned_cols=93  Identities=11%  Similarity=-0.063  Sum_probs=47.6

Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHh
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNC  194 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~  194 (340)
                      ..+..+..++...|++++|...++...+... .+...+..+..+|...|++++|...|++..+   .+...+..+..++.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHH
Confidence            5555566666666666666666666655532 2445555666666666666666666665432   23445555555555


Q ss_pred             ccCchhHHH-HHHHHHhh
Q 044786          195 REGHFHQVF-NDFKEMGR  211 (340)
Q Consensus       195 ~~~~~~~a~-~~~~~m~~  211 (340)
                      ..++.+++. ..|..|..
T Consensus       168 ~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          168 KLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHHhc
Confidence            555555555 44444443

>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=98.46  E-value=8.7e-07  Score=64.36  Aligned_cols=94  Identities=11%  Similarity=0.019  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHH
Q 044786           47 LFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV  123 (340)
Q Consensus        47 ~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l  123 (340)
                      ..+..+...+.+.|++++|...|+...   ..+...|..+..++...|++++|++.|++.....      +.+...+..+
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~------p~~~~~~~~l   95 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD------IXEPRFPFHA   95 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------TTCTHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC------CCCchHHHHH
Confidence            344455555556666666666665544   2234445555555666666666666666665552      2334455555


Q ss_pred             HHHhhhccchhhHHHHHHHHHHc
Q 044786          124 LKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      ..++...|++++|.+.|+...+.
T Consensus        96 g~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           96 AECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            55566666666666666555544

>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=98.45  E-value=3.4e-06  Score=59.11  Aligned_cols=95  Identities=9%  Similarity=-0.015  Sum_probs=59.8

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      ...|......+.+.|++++|.+.|+...+.  .+.+...|..+..++.+.|++++|++.|++..+   .+...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            345555666666777777777777776665  233556666666666666777776666666552   234456666666


Q ss_pred             HHcccChhHHHHHHHHHHHh
Q 044786           87 YVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +...|++++|.+.|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            66666666666666666655

>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=98.45  E-value=3.9e-07  Score=69.79  Aligned_cols=82  Identities=15%  Similarity=0.017  Sum_probs=46.7

Q ss_pred             hHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhc
Q 044786          153 SLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKAC  228 (340)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~  228 (340)
                      ..+..+..+|.+.|++++|...++...+   .+...+..+..+|...|++++|...|++..+.  .|+ ...+..+...+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHH
Confidence            4555566666666666666666666542   24455666666666666666666666666553  232 33444444444


Q ss_pred             ccCCchhc
Q 044786          229 GGVDDDGN  236 (340)
Q Consensus       229 ~~~~~~~~  236 (340)
                      ...++..+
T Consensus       167 ~~~~~~~~  174 (198)
T 2fbn_A          167 NKLKEARK  174 (198)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            44444444

>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=98.44  E-value=1.3e-06  Score=63.36  Aligned_cols=92  Identities=9%  Similarity=-0.132  Sum_probs=43.0

Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhc
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCR  195 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~  195 (340)
                      .+..+...+.+.|++++|...|+...+.... +...+..+..+|...|++++|...|++...   .+...+..+..+|..
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            3344444444444444444444444443322 334444444444455555555555444331   133444555555555


Q ss_pred             cCchhHHHHHHHHHhh
Q 044786          196 EGHFHQVFNDFKEMGR  211 (340)
Q Consensus       196 ~~~~~~a~~~~~~m~~  211 (340)
                      .|++++|...|++..+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.44  E-value=1.8e-05  Score=63.31  Aligned_cols=114  Identities=11%  Similarity=-0.029  Sum_probs=66.8

Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHH-------HHHhhhccchhhHHHHHHHHHHcCCCCc----------
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCV-------LKACVCTMNMELGKQVHGLLFKLGSSRN----------  151 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~~~~~~----------  151 (340)
                      ..++...|.+.|.+..+..      +-....|..+       ...+.+.++..++...++.-..  +.|+          
T Consensus        18 ~~~d~~~A~~~F~~a~~~d------P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g   89 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD------ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGG   89 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCT
T ss_pred             cCCCHHHHHHHHHHHHHhC------hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCC
Confidence            4677777777777777774      3334455555       3444444455554444443333  1111          


Q ss_pred             ------------hhHHHHHHHHHHhhcCHHHHHHHHHHccc--CChhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          152 ------------ISLTGSLINFYGKFRCLEDADFVFSQLKR--HNTVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       152 ------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                                  ..........+...|++++|.++|+.+..  |+......+...+.+.+++++|+..|+...
T Consensus        90 ~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~  162 (282)
T 4f3v_A           90 LYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAG  162 (282)
T ss_dssp             TTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGG
T ss_pred             cccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhh
Confidence                        11233456667778888888888887753  322244455556777788888888876443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.44  E-value=7.4e-05  Score=64.34  Aligned_cols=192  Identities=10%  Similarity=-0.089  Sum_probs=135.5

Q ss_pred             HHHHhcCChhHHHHHHhhcCcCCc--------------------ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccc
Q 044786           54 LMHVSCGQLDTARQLFDEMPLRDF--------------------NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLL  113 (340)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~~~--------------------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  113 (340)
                      ..+.+.|++++|++.|..+.+.+.                    .++..+...|...|++++|.+.+.+..........-
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            446778999999999988763211                    126778899999999999999999987753122000


Q ss_pred             cchHHHHHHHHHHhhhccchhhHHHHHHHHHHc----CCCC-chhHHHHHHHHHHhhcCHHHHHHHHHHccc--------
Q 044786          114 VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL----GSSR-NISLTGSLINFYGKFRCLEDADFVFSQLKR--------  180 (340)
Q Consensus       114 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------  180 (340)
                      .....+.+.+-..+...|+++.+..+++.....    +..+ -..++..+...|...|++++|..++++...        
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence            111224444555566678999999998876543    3222 245778899999999999999999988642        


Q ss_pred             C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhc--cc-CC-C--hhhHHHHHHhcccCCchhchHHHHHHHH
Q 044786          181 H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE--RI-KK-N--SYTFSSVLKACGGVDDDGNCGRQMHANI  245 (340)
Q Consensus       181 ~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~-~p-~--~~t~~~ll~~~~~~~~~~~~~~~~~~~~  245 (340)
                      + .+.++..++..|...|++++|..++++....  .+ .| .  ...+..+...+...+++.++...+.+.+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            1 2457889999999999999999999887642  11 12 1  2446666777888999988555444443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.44  E-value=1.8e-06  Score=69.03  Aligned_cols=184  Identities=4%  Similarity=-0.156  Sum_probs=133.7

Q ss_pred             hccchhhHHHHHHHHHhhcCCCCCHHHHHHH-------HHHHHhcCChhHHHHHHhhcCc--C-------C-cc------
Q 044786           22 FQKDSAGAFELLNHIRKRVNIKPTLLFLNRL-------LLMHVSCGQLDTARQLFDEMPL--R-------D-FN------   78 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~l-------i~~~~~~~~~~~a~~~~~~~~~--~-------~-~~------   78 (340)
                      ..++...|.+.|......  -+-....|..+       ..++.+.++..++...+..-..  |       + .-      
T Consensus        18 ~~~d~~~A~~~F~~a~~~--dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY--DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHh--ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            578999999999999987  33356777777       4556665556666655554442  1       1 00      


Q ss_pred             --------cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCC
Q 044786           79 --------SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSR  150 (340)
Q Consensus        79 --------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  150 (340)
                              .+-.+...+...|++++|.++|+.+...       .|+......+...+.+.+++++|+..++...+.. .|
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~-------~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~  167 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA-------GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DK  167 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT-------TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-------CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-Cc
Confidence                    1234567788899999999999988765       3444466677778899999999999998554332 12


Q ss_pred             c--hhHHHHHHHHHHhhcCHHHHHHHHHHcccCC------hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC
Q 044786          151 N--ISLTGSLINFYGKFRCLEDADFVFSQLKRHN------TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN  217 (340)
Q Consensus       151 ~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  217 (340)
                      .  ...+..+..++...|++++|+..|++....+      .........++.+.|+.++|..+|+++...  .|+
T Consensus       168 ~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~  240 (282)
T 4f3v_A          168 FLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPE  240 (282)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCC
T ss_pred             ccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence            1  2367788899999999999999999885322      224566677888999999999999999885  466

>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=98.40  E-value=2.5e-06  Score=59.86  Aligned_cols=94  Identities=12%  Similarity=0.179  Sum_probs=50.7

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---C-------cccH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---D-------FNSW   80 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~-------~~~~   80 (340)
                      ..|..+...+...|+++.|...|+.....  .+.+...+..+...+...|++++|...++.....   +       ..+|
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            34555555566666666666666666554  2334555555555555566666666555554411   1       2334


Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ..+...+...|++++|.+.|++..+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            44555555555555555555555554

>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=98.39  E-value=6.5e-06  Score=57.92  Aligned_cols=99  Identities=9%  Similarity=-0.036  Sum_probs=58.6

Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---C-------hhhHHH
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---N-------TVVWTA  188 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~-------~~~~~~  188 (340)
                      .+..+...+.+.|++++|...|+...+..+. +...|..+..+|.+.|++++|.+.|++..+-   +       ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4455555566666666666666655555422 4455556666666666666666666554321   0       124566


Q ss_pred             HHHHHhccCchhHHHHHHHHHhhcccCCChhh
Q 044786          189 KIVNNCREGHFHQVFNDFKEMGRERIKKNSYT  220 (340)
Q Consensus       189 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  220 (340)
                      +..++...|++++|++.|++....  .||..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~  118 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPEL  118 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHH
Confidence            667777778888888888777653  455443

>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=98.37  E-value=6.3e-06  Score=57.72  Aligned_cols=93  Identities=8%  Similarity=-0.040  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVL  124 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll  124 (340)
                      .+..+...+.+.|++++|.+.|++..   ..+...|..+..++.+.|++++|+..+++..+..      +.+...+..+.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~lg   79 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD------PNFVRAYIRKA   79 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC------CCcHHHHHHHH
Confidence            44444455555555555555555543   1233445555555555555555555555555542      22344555555


Q ss_pred             HHhhhccchhhHHHHHHHHHHc
Q 044786          125 KACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus       125 ~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      .++...|++++|...++...+.
T Consensus        80 ~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           80 TAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHHh
Confidence            5555555555555555554443

>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=98.37  E-value=1e-05  Score=55.41  Aligned_cols=20  Identities=20%  Similarity=0.292  Sum_probs=7.6

Q ss_pred             HHHHcccChhHHHHHHHHHH
Q 044786           85 VGYVDVADYQECITLFAEMM  104 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~  104 (340)
                      ..+...|++++|...+++..
T Consensus        46 ~~~~~~~~~~~A~~~~~~~~   65 (118)
T 1elw_A           46 AAYAKKGDYQKAYEDGCKTV   65 (118)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHH
Confidence            33333333333333333333

>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=98.36  E-value=7.7e-06  Score=58.08  Aligned_cols=96  Identities=8%  Similarity=-0.012  Sum_probs=61.7

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      ++..|..+...+...|++++|...|+.....  .+.+...+..+..++...|++++|...|+....   .+...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            4555666666667777777777777776665  233456666666666677777777766666552   23445666666


Q ss_pred             HHHcccChhHHHHHHHHHHHh
Q 044786           86 GYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      .+...|++++|...|++..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            666667777777777666655

>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=98.36  E-value=0.0007  Score=55.97  Aligned_cols=217  Identities=6%  Similarity=-0.096  Sum_probs=122.0

Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc-chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh-c
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM-NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF-R  166 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~  166 (340)
                      +....++|++++++++..+      +-+..+|+.--..+...| .+++++++++.+.....+ +..+|+--.-.+.+. +
T Consensus        66 ~~e~se~AL~lt~~~L~~n------P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN------PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCC
T ss_pred             hCCCCHHHHHHHHHHHHhC------chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcC
Confidence            3444566777777777763      333445555555555556 477777777777766544 555555544444444 5


Q ss_pred             -CHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchh--------HHHHHHHHHhhcccCCChhhHHHHHHhcccCCc-
Q 044786          167 -CLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFH--------QVFNDFKEMGRERIKKNSYTFSSVLKACGGVDD-  233 (340)
Q Consensus       167 -~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~-  233 (340)
                       +++++.++++.+.+.   |..+|+.-.-.+.+.|.++        ++++.++++.+.. .-|...|+.--..+.+.+. 
T Consensus       139 ~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTC
T ss_pred             CChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccc
Confidence             667777777777654   4445555444444445555        7777777777653 2244555554444444443 


Q ss_pred             ------hhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCH--------------------HHHHHHHHHhhc-----
Q 044786          234 ------DGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLL--------------------RDAERVFELIVD-----  282 (340)
Q Consensus       234 ------~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~--------------------~~A~~~~~~~~~-----  282 (340)
                            +++ +........... +-|...|+-+-..+.+.|+.                    ....++..++..     
T Consensus       218 ~~~~~~~~e-ELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  295 (349)
T 3q7a_A          218 ETSSRSLQD-ELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPE  295 (349)
T ss_dssp             CCCHHHHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCS
T ss_pred             ccchHHHHH-HHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccccc
Confidence                  222 333333333321 23556665555555544432                    233333333322     


Q ss_pred             ---CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          283 ---KKNIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       283 ---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                         .+++..+..|...|...|+.++|.++++.+.++
T Consensus       296 ~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          296 DTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             SCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence               146677788888888889999999999988544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.35  E-value=4.6e-06  Score=56.66  Aligned_cols=96  Identities=7%  Similarity=-0.083  Sum_probs=64.0

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---C--CcccHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---R--DFNSWAVM   83 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~--~~~~~~~l   83 (340)
                      +...+..+...+.+.|++++|...++...+.  .+.+...+..+...+...|++++|.+.|++..+   .  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            4566677777777788888888888877766  233556666666677777777777777666542   2  33456666


Q ss_pred             HHHHHcc-cChhHHHHHHHHHHHh
Q 044786           84 IVGYVDV-ADYQECITLFAEMMKR  106 (340)
Q Consensus        84 i~~~~~~-g~~~~a~~~~~~m~~~  106 (340)
                      ...+... |++++|.+.+++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            6666666 7777777776666655

>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=98.35  E-value=6.2e-05  Score=62.24  Aligned_cols=231  Identities=12%  Similarity=0.010  Sum_probs=108.9

Q ss_pred             cchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHhhcCcCCc---ccHHHHHHHHHcc-c-ChhHHH
Q 044786           24 KDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG-QLDTARQLFDEMPLRDF---NSWAVMIVGYVDV-A-DYQECI   97 (340)
Q Consensus        24 ~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~-g-~~~~a~   97 (340)
                      ...++|+++++.+...  -+-+..+|+.--..+...| .+++++++++.+...++   .+|+.-...+.+. + ++++++
T Consensus        68 e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL  145 (349)
T 3q7a_A           68 EKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEI  145 (349)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHH
T ss_pred             CCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHH
Confidence            3445666666666655  2334455555555555555 36666666666653332   3444444444443 4 566666


Q ss_pred             HHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchh--------hHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcC--
Q 044786           98 TLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNME--------LGKQVHGLLFKLGSSRNISLTGSLINFYGKFRC--  167 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  167 (340)
                      ++++++.+..      +-+...|+.-.-...+.|.++        ++++.++.+.+..+. |...|+.....+.+.++  
T Consensus       146 ~~~~k~L~~d------pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          146 EYIHGSLLPD------PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             HHHHHHTSSC------TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCC
T ss_pred             HHHHHHHHhC------CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccc
Confidence            6666666553      344445554444444444444        555555555554433 44444444444444333  


Q ss_pred             -----HHHHHHHHHHccc---CChhhHHHHHHHHhccCchhH--HHHHHHHHhhcc--cCCChhhHHHHHHhcccCCchh
Q 044786          168 -----LEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQ--VFNDFKEMGRER--IKKNSYTFSSVLKACGGVDDDG  235 (340)
Q Consensus       168 -----~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~--a~~~~~~m~~~~--~~p~~~t~~~ll~~~~~~~~~~  235 (340)
                           ++++.+.+++...   .|...|+-+-..+.+.|+...  -..+   -...|  +.|+                ..
T Consensus       219 ~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~---~~~~~~~~~~~----------------~~  279 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAI---LPYTASKLNPD----------------IE  279 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHH---GGGTC------------------------
T ss_pred             cchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccc---ccccccccccc----------------ch
Confidence                 3334444333321   133333333222222222100  0000   00000  0000                00


Q ss_pred             chHHHHHHHHHHh-----CCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC
Q 044786          236 NCGRQMHANIVKI-----GLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK  283 (340)
Q Consensus       236 ~~~~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  283 (340)
                      + ...+...+...     .-.+++.....|.+.|...|+.++|.++++.+..+
T Consensus       280 ~-~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          280 T-VEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             -------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             h-HHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            0 11111111111     11357788899999999999999999999999754

>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=98.34  E-value=7.6e-06  Score=56.10  Aligned_cols=96  Identities=7%  Similarity=-0.078  Sum_probs=83.4

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      .+..+..+...+...|++++|.+.|+.....  .+.+...+..+...+.+.|++++|...+++...   .+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            4567788888999999999999999999987  345788899999999999999999999998763   34567888889


Q ss_pred             HHHcccChhHHHHHHHHHHHh
Q 044786           86 GYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      .+...|++++|.+.+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            999999999999999999877

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.34  E-value=4e-06  Score=60.25  Aligned_cols=91  Identities=10%  Similarity=-0.095  Sum_probs=47.8

Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcc
Q 044786           14 TCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDV   90 (340)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~   90 (340)
                      ..+...+.+.|++++|.+.|+.....  -+.+...|..+..++.+.|++++|...|+...   ..+...|..+..++...
T Consensus        22 ~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           22 YALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            33444455555555555555555544  22344555555555555555555555555544   12333455555555555


Q ss_pred             cChhHHHHHHHHHHHh
Q 044786           91 ADYQECITLFAEMMKR  106 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~  106 (340)
                      |++++|.+.|++..+.
T Consensus       100 g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A          100 GDLDGAESGFYSARAL  115 (142)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            5555555555555544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.34  E-value=7.5e-06  Score=57.05  Aligned_cols=94  Identities=9%  Similarity=-0.096  Sum_probs=58.7

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .+..+...+.+.|++++|+..|++..+..      +.+...+..+..++...|++++|...++...+.... +...+..+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~l   91 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE------PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAAL   91 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            34445556666777777777777776663      335556666666666667777777776666665433 44455566


Q ss_pred             HHHHHhhcCHHHHHHHHHHcc
Q 044786          159 INFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      ..+|...|++++|...|++..
T Consensus        92 a~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           92 AVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            666666666666666666544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.34  E-value=8.2e-06  Score=55.38  Aligned_cols=95  Identities=13%  Similarity=0.016  Sum_probs=46.0

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-CchhHH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-RNISLT  155 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~  155 (340)
                      ...|..+...+...|++++|...|++..+..      +.+...+..+...+...|++++|.+.++...+.... .+...+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~   79 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD------PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVW   79 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC------cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHH
Confidence            3345555555666666666666666665552      233444555555555555555555555555444211 023333


Q ss_pred             HHHHHHHHhh-cCHHHHHHHHHH
Q 044786          156 GSLINFYGKF-RCLEDADFVFSQ  177 (340)
Q Consensus       156 ~~l~~~~~~~-~~~~~a~~~~~~  177 (340)
                      ..+...+.+. |++++|.+.++.
T Consensus        80 ~~l~~~~~~~~~~~~~A~~~~~~  102 (112)
T 2kck_A           80 AAKADALRYIEGKEVEAEIAEAR  102 (112)
T ss_dssp             HHHHHHHTTCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHH
Confidence            3344444444 444444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.34  E-value=9e-06  Score=59.96  Aligned_cols=97  Identities=13%  Similarity=0.197  Sum_probs=72.9

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIV   85 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~   85 (340)
                      +...|..+...+.+.|++++|++.|+...+.  .+.+...|..+..+|.+.|++++|+..|++...   .+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3556677777778888888888888888776  344677777888888888888888888877662   34556777777


Q ss_pred             HHHcccChhHHHHHHHHHHHhh
Q 044786           86 GYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      .+...|++++|.+.|++..+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            8888888888888888887774

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.34  E-value=5.2e-06  Score=60.55  Aligned_cols=132  Identities=9%  Similarity=-0.092  Sum_probs=72.1

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC----C-chhH
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS----R-NISL  154 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~-~~~~  154 (340)
                      +..+...+...|++++|++.+++..+.............++..+...+...|++++|...++...+....    + ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            4445555556666666666666555442000000111135555666666666666666666655432110    0 1334


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHcccC---------ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQLKRH---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      +..+...+...|++++|.+.+++..+.         ...++..+...+...|++++|...+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            555666666777777776666654321         123466667777777888888777777654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.33  E-value=5.8e-06  Score=59.39  Aligned_cols=88  Identities=8%  Similarity=-0.027  Sum_probs=39.1

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFY  162 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  162 (340)
                      +...+.+.|++++|+..|++.....      +.+...|..+..++...|++++|...|+...+.... +...+..+..+|
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   96 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLD------HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhC------CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence            3344444555555555555554442      223334444444444444444444444444444322 233333444444


Q ss_pred             HhhcCHHHHHHHHHH
Q 044786          163 GKFRCLEDADFVFSQ  177 (340)
Q Consensus       163 ~~~~~~~~a~~~~~~  177 (340)
                      ...|++++|...|+.
T Consensus        97 ~~~g~~~~A~~~~~~  111 (142)
T 2xcb_A           97 LQLGDLDGAESGFYS  111 (142)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHH
Confidence            444444444444443

>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=98.33  E-value=6.4e-06  Score=57.95  Aligned_cols=100  Identities=10%  Similarity=0.022  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCc-cccchHHHHHHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHM-LLVFPAWIIVCV  123 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~l  123 (340)
                      .+..+...+.+.|++++|++.|++..   ..+...|+.+..+|...|++++|++.+++.++...... ....-..+|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            34444455555555555555555443   12333455555555555555555555555554420000 000012345555


Q ss_pred             HHHhhhccchhhHHHHHHHHHHcC
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      ..++...|++++|.+.|+..++..
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~~~  113 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLSEF  113 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC
Confidence            555555555555555555555543

>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=98.30  E-value=1.4e-05  Score=56.78  Aligned_cols=92  Identities=5%  Similarity=-0.143  Sum_probs=37.8

Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhc
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCR  195 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~  195 (340)
                      .+..+...+...|++++|...|+...+.... +...+..+..+|...|++++|...++...+   .+...|..+..++..
T Consensus        11 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   89 (137)
T 3q49_B           11 ELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLE   89 (137)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence            3333334444444444444444433333211 233334444444444444444444443321   123344444444444


Q ss_pred             cCchhHHHHHHHHHhh
Q 044786          196 EGHFHQVFNDFKEMGR  211 (340)
Q Consensus       196 ~~~~~~a~~~~~~m~~  211 (340)
                      .|++++|...|++..+
T Consensus        90 ~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           90 MESYDEAIANLQRAYS  105 (137)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHH
Confidence            4555555544444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.29  E-value=1.1e-05  Score=59.46  Aligned_cols=94  Identities=9%  Similarity=-0.067  Sum_probs=54.0

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .|..+...+...|++++|++.|++..+..      +.+...|..+..++.+.|++++|...++...+.... +...|..+
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l   85 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIA------PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC------CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            34445555556666666666666665552      234455555566666666666666666665555432 45555566


Q ss_pred             HHHHHhhcCHHHHHHHHHHcc
Q 044786          159 INFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      ..+|...|++++|...|++..
T Consensus        86 g~~~~~~g~~~~A~~~~~~al  106 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGI  106 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHH
Confidence            666666666666666666554

>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=98.28  E-value=1.1e-05  Score=56.50  Aligned_cols=108  Identities=12%  Similarity=0.035  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch----HH
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP----AW  118 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~----~~  118 (340)
                      ...+..+...+...|++++|...|+....   .+...+..+...+...|++++|...+++........   .++    ..
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~~~   80 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGREN---REDYRQIAK   80 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS---TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcccc---chhHHHHHH
Confidence            45666777778888888888888887652   344567777778888888888888888887763100   111    56


Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      ++..+...+...|++++|.+.++...+..  |+......+
T Consensus        81 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l  118 (131)
T 1elr_A           81 AYARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHH
Confidence            77777777888888888888888777764  344444333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.27  E-value=1.9e-05  Score=56.72  Aligned_cols=94  Identities=10%  Similarity=-0.011  Sum_probs=54.9

Q ss_pred             cchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHH
Q 044786           10 TDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT----LLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAV   82 (340)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~   82 (340)
                      ...+..+...+...|++++|.+.|+...+.   .|+    ...+..+...+...|++++|.+.++...+   .+...|..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            444555666666666677776666666643   344    45555555666666666666666655441   23334555


Q ss_pred             HHHHHHcccChhHHHHHHHHHHHh
Q 044786           83 MIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +...+...|++++|.+.|++....
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            555666666666666666666555

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.25  E-value=0.00056  Score=60.04  Aligned_cols=196  Identities=7%  Similarity=-0.107  Sum_probs=112.2

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHhhcCc------CCcccH
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQ-LDTARQLFDEMPL------RDFNSW   80 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~------~~~~~~   80 (340)
                      --...|...+..+-. |+++.+.++|+.....   .|+...|...+....+.++ .+....+|+....      .+...|
T Consensus        13 ~aR~vyer~l~~~P~-~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW   88 (493)
T 2uy1_A           13 SPSAIMEHARRLYMS-KDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLY   88 (493)
T ss_dssp             CHHHHHHHHHHHHHT-TCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHH
T ss_pred             HHHHHHHHHHHHCCC-CCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHH
Confidence            334567777777755 7899999999998865   4788888888887777663 4556666766442      244567


Q ss_pred             HHHHHHHHc----ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhh-------------ccchhhHHHHHHHH
Q 044786           81 AVMIVGYVD----VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVC-------------TMNMELGKQVHGLL  143 (340)
Q Consensus        81 ~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~-------------~~~~~~a~~~~~~~  143 (340)
                      ...+..+..    .++.+.+.++|++.+..  ..   ..-...|......-..             .+.+..|..+++.+
T Consensus        89 ~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~---~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~  163 (493)
T 2uy1_A           89 KEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PM---GSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQI  163 (493)
T ss_dssp             HHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CC---TTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hh---hhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHH
Confidence            777766553    46778888888888864  11   1122233322221110             11222333333333


Q ss_pred             HHcCCCCchhHHHHHHHHHHhhc-------CHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          144 FKLGSSRNISLTGSLINFYGKFR-------CLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       144 ~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      ...-...+...|...+..-...+       ..+.+..+|++...   .....|-..+.-+.+.|++++|..++++....
T Consensus       164 ~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          164 QPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            32100012234444333321110       02345567777653   24556777777777888899999999888876

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.25  E-value=3e-05  Score=55.61  Aligned_cols=96  Identities=9%  Similarity=-0.056  Sum_probs=50.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCc--CC----cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPL--RD----FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW  118 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  118 (340)
                      +...+..+...+.+.|++++|.+.|++..+  |+    ...|..+...+...|++++|++.+++..+..      +.+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------~~~~~  100 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD------GGDVK  100 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT------SCCHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC------ccCHH
Confidence            344555555555556666666666555442  22    2334445555555555555555555555542      22344


Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      .+..+..++...|++++|.+.++...+.
T Consensus       101 ~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          101 ALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            4555555555555555555555555544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.24  E-value=9.3e-06  Score=59.19  Aligned_cols=95  Identities=14%  Similarity=0.078  Sum_probs=50.3

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcCc-----CC----cc
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT----LLFLNRLLLMHVSCGQLDTARQLFDEMPL-----RD----FN   78 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~----~~   78 (340)
                      ++..+...+...|++++|.+.++.......-.++    ..++..+...+...|++++|.+.++....     ++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4555666666667777777777666543100011    13455555666666666666666655431     11    12


Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ++..+...+...|++++|.+.+++....
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~  118 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAI  118 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3444555555556666666655555443

>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=98.16  E-value=2.4e-06  Score=74.84  Aligned_cols=123  Identities=7%  Similarity=-0.013  Sum_probs=93.8

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGY   87 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   87 (340)
                      ..+..+...+.+.|++++|.+.|++..+.  .+.+...|..+..++.+.|++++|++.+++..+   .+..+|..+..+|
T Consensus         7 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   84 (477)
T 1wao_1            7 EELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   84 (477)
T ss_dssp             TTSSSSSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            34445556677889999999999999987  344688999999999999999999999998763   3455788889999


Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH--hhhccchhhHHHHHH
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA--CVCTMNMELGKQVHG  141 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~  141 (340)
                      ...|++++|++.|++..+..      +.+...+..+..+  +.+.|++++|.+.++
T Consensus        85 ~~~g~~~eA~~~~~~al~~~------p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           85 MALGKFRAALRDYETVVKVK------PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHTCHHHHHHHHHHHHHHS------TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHcCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999883      2233344444444  788899999999887

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.14  E-value=1.6e-05  Score=55.27  Aligned_cols=86  Identities=8%  Similarity=-0.018  Sum_probs=39.5

Q ss_pred             HHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhc
Q 044786           54 LMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCT  130 (340)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (340)
                      ..+.+.|++++|...|++..+  | +...|..+..++...|++++|+..|++..+..      +-+...+..+..++...
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~------P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD------PKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHc
Confidence            334444444444444444431  1 23334444444445555555555555554442      22333444444555555


Q ss_pred             cchhhHHHHHHHHHH
Q 044786          131 MNMELGKQVHGLLFK  145 (340)
Q Consensus       131 ~~~~~a~~~~~~~~~  145 (340)
                      |++++|...++...+
T Consensus        99 g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           99 HNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554443

>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=98.14  E-value=3.4e-05  Score=67.17  Aligned_cols=119  Identities=8%  Similarity=0.038  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-C---------------cccHHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-D---------------FNSWAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      ...+..+...+.+.|++++|...|++..+  | +               ...|..+..+|.+.|++++|+..+++.++..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            34556666666677777777777666542  2 2               2344445555555555555555555555442


Q ss_pred             cCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHH
Q 044786          108 KGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDA  171 (340)
Q Consensus       108 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  171 (340)
                            +.+...|..+..++...|++++|...|+...+.... +...+..+..++.+.++.+++
T Consensus       348 ------p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          348 ------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             ------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             ------CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence                  233444444555555555555555555544443321 233444444444444444433

>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=98.13  E-value=8.9e-06  Score=71.20  Aligned_cols=115  Identities=10%  Similarity=-0.025  Sum_probs=73.8

Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      .+.+.|++++|++.|++..+..      +.+..++..+..++.+.|++++|.+.+++..+.... +...+..+..+|...
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN------PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMAL   87 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC------CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            4456677777777777777763      334667777777777777777777777777766533 556677777777777


Q ss_pred             cCHHHHHHHHHHccc--C-ChhhHHHHHHH--HhccCchhHHHHHHH
Q 044786          166 RCLEDADFVFSQLKR--H-NTVVWTAKIVN--NCREGHFHQVFNDFK  207 (340)
Q Consensus       166 ~~~~~a~~~~~~~~~--~-~~~~~~~li~~--~~~~~~~~~a~~~~~  207 (340)
                      |++++|.+.|++..+  | +...+..+..+  +.+.|++++|++.++
T Consensus        88 g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            777777777777543  2 33445555444  666777777777776

>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=98.13  E-value=4.7e-05  Score=66.31  Aligned_cols=127  Identities=8%  Similarity=-0.067  Sum_probs=96.8

Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccch---------------HHHHHHHHHHhhhccchhhHHHHHH
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFP---------------AWIIVCVLKACVCTMNMELGKQVHG  141 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~---------------~~~~~~ll~~~~~~~~~~~a~~~~~  141 (340)
                      ...|..+...+.+.|++++|+..|++..+..      +.+               ...|..+..++.+.|++++|...++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~------p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~  341 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL------EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCD  341 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh------cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            3467788889999999999999999999874      222               4778888888888888999888888


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHH-HHHHHHh
Q 044786          142 LLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVF-NDFKEMG  210 (340)
Q Consensus       142 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~-~~~~~m~  210 (340)
                      ...+.... +...|..+..+|...|++++|...|++..+.   +...+..+..++...++.+++. .+++.|.
T Consensus       342 ~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          342 KALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88887643 6677888888888888888888888887643   4556777777777777777665 3455554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.10  E-value=5.6e-05  Score=52.84  Aligned_cols=91  Identities=8%  Similarity=-0.047  Sum_probs=52.0

Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHhhcCCCCCH---HHHHHHHHHHHhcCChhHHHHHHhhcCc--CC----cccHHHHH
Q 044786           14 TCLIKECTFQKDSAGAFELLNHIRKRVNIKPTL---LFLNRLLLMHVSCGQLDTARQLFDEMPL--RD----FNSWAVMI   84 (340)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~li   84 (340)
                      ..+...+...|++++|.+.|+...+.  .+.+.   ..+..+..++.+.|++++|...|+....  |+    ..++..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            33445556666777777777766654  11122   3555555666666666666666665542  22    22355555


Q ss_pred             HHHHcccChhHHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      .++...|++++|...|++....
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            5666666666666666666655

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.09  E-value=5.8e-05  Score=52.78  Aligned_cols=95  Identities=12%  Similarity=0.018  Sum_probs=47.5

Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCc--hhHHHHH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRN--ISLTGSL  158 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  158 (340)
                      ..+...+...|++++|.+.|++..+.....   ......+..+..++...|++++|...++...+......  ...+..+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l   82 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPNG---VYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSS---TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCCC---cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHH
Confidence            334455666667777777777666652000   11113555555566666666666666666555432211  2333444


Q ss_pred             HHHHHhhcCHHHHHHHHHHc
Q 044786          159 INFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~  178 (340)
                      ..+|...|++++|...|+.+
T Consensus        83 a~~~~~~g~~~~A~~~~~~~  102 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQV  102 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            44444444444444444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.06  E-value=1.1e-05  Score=55.72  Aligned_cols=85  Identities=9%  Similarity=0.016  Sum_probs=57.1

Q ss_pred             hccchhhHHHHHHHHHhhcC--CCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHH
Q 044786           22 FQKDSAGAFELLNHIRKRVN--IKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        22 ~~~~~~~a~~~~~~m~~~~g--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a   96 (340)
                      ..|++++|+..|+...+. +  -+.+...+..+..++.+.|++++|.+.|++..+   .+...+..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHH
Confidence            357788888888887765 3  133456677777777888888888888877652   2445677777777788888888


Q ss_pred             HHHHHHHHHhh
Q 044786           97 ITLFAEMMKRK  107 (340)
Q Consensus        97 ~~~~~~m~~~~  107 (340)
                      +..+++.....
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            88888777763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.03  E-value=4.4e-05  Score=63.64  Aligned_cols=92  Identities=4%  Similarity=-0.064  Sum_probs=50.6

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHH------------------HHHHHHHHhhhccchhhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW------------------IIVCVLKACVCTMNMELGKQVH  140 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~------------------~~~~ll~~~~~~~~~~~a~~~~  140 (340)
                      .+..+...+.+.|++++|+..|++....       .|+..                  .|..+..++.+.|++++|...+
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~-------~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~  253 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY-------MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHC  253 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH-------SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH-------hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3666777788889999999999998877       45443                  3344444444444444444444


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          141 GLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      +...+.... +...|..+..+|...|++++|...|++.
T Consensus       254 ~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          254 NIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444443211 3334444444444444444444444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.01  E-value=6.1e-05  Score=65.76  Aligned_cols=126  Identities=7%  Similarity=-0.081  Sum_probs=87.1

Q ss_pred             HHHcccChhHHHHHHHHHHHhhcCCc-cccc-hHHHHHHHHHHhhhccchhhHHHHHHHHHHc-----CC-CC-chhHHH
Q 044786           86 GYVDVADYQECITLFAEMMKRKKGHM-LLVF-PAWIIVCVLKACVCTMNMELGKQVHGLLFKL-----GS-SR-NISLTG  156 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~  156 (340)
                      .+...|++++|+.++++.++....+. ...| ...+++.|..+|...|++++|..++++.++.     |. .| ...+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            35577888888888888877642221 0122 3457888888888888888888888776543     32 22 234677


Q ss_pred             HHHHHHHhhcCHHHHHHHHHHccc-------CC----hhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          157 SLINFYGKFRCLEDADFVFSQLKR-------HN----TVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~-------~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      .|...|...|++++|+.++++..+       ++    ..+.+.+-.++...+.+++|..+|+++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888777542       11    22456666777778888888888888865

>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=98.00  E-value=4.5e-05  Score=64.36  Aligned_cols=85  Identities=4%  Similarity=-0.101  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHH
Q 044786          117 AWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNN  193 (340)
Q Consensus       117 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~  193 (340)
                      ..+|..+..++.+.|++++|.+.++...+.... +...+..+..+|...|++++|.+.|++..+  | +...+..+...+
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            344555555555555555555555555544322 344455555555555555555555555432  1 333444444444


Q ss_pred             hccCchhHH
Q 044786          194 CREGHFHQV  202 (340)
Q Consensus       194 ~~~~~~~~a  202 (340)
                      ...++.+++
T Consensus       352 ~~~~~~~~a  360 (370)
T 1ihg_A          352 QKIKAQKDK  360 (370)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.00  E-value=2.2e-05  Score=54.13  Aligned_cols=83  Identities=6%  Similarity=-0.143  Sum_probs=34.2

Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      |++++|+..|++..+.+..-   +.+...+..+..++...|++++|...++...+.... +...+..+..++...|++++
T Consensus         4 g~~~~A~~~~~~al~~~~~~---p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQG---KDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCH---HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCC---ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHH
Confidence            44455555555544431000   122334444444444445555555555444444322 23344444444444444444


Q ss_pred             HHHHHHH
Q 044786          171 ADFVFSQ  177 (340)
Q Consensus       171 a~~~~~~  177 (340)
                      |...|++
T Consensus        80 A~~~~~~   86 (117)
T 3k9i_A           80 GVELLLK   86 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.99  E-value=3.7e-05  Score=67.15  Aligned_cols=124  Identities=5%  Similarity=-0.141  Sum_probs=69.8

Q ss_pred             hhhccchhhHHHHHHHHHhhc--CCCC----CHHHHHHHHHHHHhcCChhHHHHHHhhcCc-------CC----cccHHH
Q 044786           20 CTFQKDSAGAFELLNHIRKRV--NIKP----TLLFLNRLLLMHVSCGQLDTARQLFDEMPL-------RD----FNSWAV   82 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~--g~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------~~----~~~~~~   82 (340)
                      +...|++++|..++++.....  -+.|    ...+++.|..+|...|++++|+.++++...       ++    ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            345677777777776665431  1112    245677777777777777777776665441       11    124666


Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhh---cCCccccchH-HHHHHHHHHhhhccchhhHHHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRK---KGHMLLVFPA-WIIVCVLKACVCTMNMELGKQVHGLLFK  145 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~  145 (340)
                      |...|...|++++|+.++++.....   .|.+  .|+. .+...+-.++...+.+++|+.+|+.+++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~--Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPS--HPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT--SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777776665431   1221  2222 2344444555555666666666655543

>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=97.99  E-value=8.4e-05  Score=62.71  Aligned_cols=131  Identities=11%  Similarity=0.022  Sum_probs=89.8

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      .|..+...+.+.|++++|++.|++.++..       +...          .....+.+       .+.. ..+...|..+
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~-------~~~~----------~~~~~~~~-------~~~~-~~~~~~~~nl  279 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV-------EGSR----------AAAEDADG-------AKLQ-PVALSCVLNI  279 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------HHHH----------HHSCHHHH-------GGGH-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh-------hcCc----------cccChHHH-------HHHH-HHHHHHHHHH
Confidence            36667778888899999999998887651       2110          00001111       1110 1145678888


Q ss_pred             HHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCch
Q 044786          159 INFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDD  234 (340)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~  234 (340)
                      ..+|.+.|++++|.+.+++..+.   +...|..+..+|...|++++|+..|++..+.  .|+ ...+..+...+...++.
T Consensus       280 a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~  357 (370)
T 1ihg_A          280 GACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQ  357 (370)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHH
Confidence            89999999999999999987643   5667888889999999999999999998874  454 44555556666666665


Q ss_pred             hc
Q 044786          235 GN  236 (340)
Q Consensus       235 ~~  236 (340)
                      .+
T Consensus       358 ~~  359 (370)
T 1ihg_A          358 KD  359 (370)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.98  E-value=0.00018  Score=52.68  Aligned_cols=98  Identities=10%  Similarity=-0.043  Sum_probs=50.0

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcC------Ccc------ccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKG------HML------LVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      +......+.+.|++++|+..|.+....-..      +..      .+.+...|..+..++.+.|++++|...++...+..
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~   93 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE   93 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence            445556666677777777777766654000      000      02233445555555555555555555555555543


Q ss_pred             CCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          148 SSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       148 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      .. +...|..+..+|...|++++|...|+..
T Consensus        94 p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~a  123 (162)
T 3rkv_A           94 ET-NEKALFRRAKARIAAWKLDEAEEDLKLL  123 (162)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             Cc-chHHHHHHHHHHHHHhcHHHHHHHHHHH
Confidence            22 3444445555555555555555555443

>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=97.92  E-value=0.006  Score=50.14  Aligned_cols=90  Identities=8%  Similarity=-0.031  Sum_probs=42.4

Q ss_pred             hhHHHHHHhhcCc---CCcccHHHHHHHHHccc--ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc-hhh
Q 044786           62 LDTARQLFDEMPL---RDFNSWAVMIVGYVDVA--DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN-MEL  135 (340)
Q Consensus        62 ~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~  135 (340)
                      +++++.+++.+..   ++..+|+.-...+.+.|  .+++++.+++++.+.+      +-+...|+.-.-.....|. +++
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------ERNFHCWDYRRFVAAQAAVAPAE  163 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHhCcCHHH
Confidence            3455555555442   23334444444444444  2555566666665553      3344444444444444444 355


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHH
Q 044786          136 GKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus       136 a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      +++.++.+.+..+. |...|+..
T Consensus       164 el~~~~~~I~~~p~-N~SAW~~R  185 (331)
T 3dss_A          164 ELAFTDSLITRNFS-NYSSWHYR  185 (331)
T ss_dssp             HHHHHHHHHHHCSC-CHHHHHHH
T ss_pred             HHHHHHHHHHHCCC-CHHHHHHH
Confidence            55555555555433 34444433

>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=97.90  E-value=9.2e-05  Score=53.54  Aligned_cols=61  Identities=5%  Similarity=-0.112  Sum_probs=30.4

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh-------hcCCccccchHHHH----HHHHHHhhhccchhhHHHHHHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR-------KKGHMLLVFPAWII----VCVLKACVCTMNMELGKQVHGLLFK  145 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~~~~----~~ll~~~~~~~~~~~a~~~~~~~~~  145 (340)
                      .|+.+..++.+.|++++|+..+++.++.       .      +-+...|    .....++...|++++|+..|+...+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~------pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN------QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT------STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC------CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            4444455555555555555555555444       2      2233344    5555555555555555555554443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.89  E-value=7e-05  Score=54.92  Aligned_cols=64  Identities=19%  Similarity=0.216  Sum_probs=45.1

Q ss_pred             ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           78 NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        78 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      ..|..+..+|.+.|++++|+..+++.+...      +.+...|..+..++...|++++|...|+...+..
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~------p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE------ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC------CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            356666777777777777777777777763      4455677777777777777777777777776664

>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=97.88  E-value=0.00024  Score=51.40  Aligned_cols=67  Identities=9%  Similarity=-0.030  Sum_probs=42.0

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCc------cccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHM------LLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      +......+.+.|++++|+..|++.++.....+      ..+.+...|..+..++.+.|++++|+..++..++.
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l   86 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY   86 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            44556677788999999999999988841100      00001236666666666666766666666665554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.82  E-value=3.9e-05  Score=63.96  Aligned_cols=145  Identities=7%  Similarity=-0.041  Sum_probs=73.7

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccC
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~   92 (340)
                      +..+...+.+.|++++|...|+.....   .|+...       +...++.+++...+.      ...|..+..+|.+.|+
T Consensus       182 ~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l~------~~~~~nla~~~~~~g~  245 (338)
T 2if4_A          182 RKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAVK------NPCHLNIAACLIKLKR  245 (338)
T ss_dssp             HHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHHH------THHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHHH------HHHHHHHHHHHHHcCC
Confidence            444455555666666666666666544   233221       112223333322221      1367788888889999


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH-HHhhcCHHHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF-YGKFRCLEDA  171 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  171 (340)
                      +++|+..+++.++..      +.+...|..+..++...|++++|...|+...+.... +...+..+... ....+..+++
T Consensus       246 ~~~A~~~~~~al~~~------p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          246 YDEAIGHCNIVLTEE------EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             CHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999988874      446778888889999999999999998888765432 34445555444 2344567777


Q ss_pred             HHHHHHccc
Q 044786          172 DFVFSQLKR  180 (340)
Q Consensus       172 ~~~~~~~~~  180 (340)
                      ...|..|..
T Consensus       319 ~~~~~~~l~  327 (338)
T 2if4_A          319 KEMYKGIFK  327 (338)
T ss_dssp             ---------
T ss_pred             HHHHHHhhC
Confidence            888887754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.80  E-value=2.3e-05  Score=53.22  Aligned_cols=63  Identities=6%  Similarity=-0.080  Sum_probs=37.7

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .|..+...+...|++++|++.|++..+..      +.+...+..+..++.+.|++++|.+.++...+..
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQ------PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34555556666666666666666666652      3344556666666666666666666666665543

>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=97.77  E-value=0.00075  Score=47.93  Aligned_cols=111  Identities=13%  Similarity=0.009  Sum_probs=79.3

Q ss_pred             ccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh----h
Q 044786           90 VADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK----F  165 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  165 (340)
                      .+++++|.+.|++..+.+      .|+..    +...+...+.+++|.+.|+...+.|   +...+..|...|..    .
T Consensus         8 ~~d~~~A~~~~~~aa~~g------~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~   74 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN------EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVK   74 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT------CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSC
T ss_pred             ccCHHHHHHHHHHHHcCC------CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCC
Confidence            346777888888887774      34444    5566666667777888888777775   55667777777776    6


Q ss_pred             cCHHHHHHHHHHcccC-ChhhHHHHHHHHhc----cCchhHHHHHHHHHhhcc
Q 044786          166 RCLEDADFVFSQLKRH-NTVVWTAKIVNNCR----EGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       166 ~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  213 (340)
                      +++++|.+.|++..+. +...+..+-..|..    .+++++|...|++..+.|
T Consensus        75 ~d~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           75 KDLRKAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            7888888888876543 56667777777777    678888888888877765

>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=97.71  E-value=0.0013  Score=46.60  Aligned_cols=114  Identities=9%  Similarity=-0.044  Sum_probs=89.2

Q ss_pred             cCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhc----cCCHH
Q 044786          196 EGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGK----CRLLR  271 (340)
Q Consensus       196 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~  271 (340)
                      .+++++|+..|++..+.| .|+..    +-..|...+..++ +..+++...+.|   ++..+..|-..|..    .++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~-A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQK-LFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHH-HHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHH-HHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHH
Confidence            346788888888888876 33333    5555666666655 777777776654   56667777777877    78999


Q ss_pred             HHHHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHHHHHHHcCCc
Q 044786          272 DAERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       272 ~A~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~  318 (340)
                      +|.+.|++..+..++..+..|-..|..    .+++++|.++|++-.+.|..
T Consensus        79 ~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           79 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            999999999888899999999999998    89999999999999988754

>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=97.64  E-value=0.014  Score=47.89  Aligned_cols=131  Identities=8%  Similarity=-0.089  Sum_probs=95.2

Q ss_pred             hhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHhhcCc---CCcccHHHHHHHHHcccC-hhHHHHH
Q 044786           26 SAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG--QLDTARQLFDEMPL---RDFNSWAVMIVGYVDVAD-YQECITL   99 (340)
Q Consensus        26 ~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~-~~~a~~~   99 (340)
                      +++++.+++.+...  .+-+..+|+.-.-++.+.+  .+++++++++.+.+   +|..+|+.-...+...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~--~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            68899999999887  4558889988888888887  48999999999884   455677777777777787 5899999


Q ss_pred             HHHHHHhhcCCccccchHHHHHHHHHHhhhc--------------cchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh
Q 044786          100 FAEMMKRKKGHMLLVFPAWIIVCVLKACVCT--------------MNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF  165 (340)
Q Consensus       100 ~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  165 (340)
                      ++++.+..      +-|...|+.....+.+.              +.++++.+.+.......+. |...|+.+-..+.+.
T Consensus       168 ~~~~I~~~------p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          168 TDSLITRN------FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAG  240 (331)
T ss_dssp             HHHHHHHC------SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSS
T ss_pred             HHHHHHHC------CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence            99999985      55666776665555444              4567777777777766544 555555444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.60  E-value=0.00049  Score=46.96  Aligned_cols=78  Identities=5%  Similarity=-0.143  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHH
Q 044786           95 ECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFV  174 (340)
Q Consensus        95 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (340)
                      +|++.|++..+..      +.+...+..+...+...|++++|...++...+.... +...+..+..+|...|++++|...
T Consensus         3 ~a~~~~~~al~~~------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~   75 (115)
T 2kat_A            3 AITERLEAMLAQG------TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQA   75 (115)
T ss_dssp             CHHHHHHHHHTTT------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhC------CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3455555555442      334455556666666666666666666666555432 344555566666666666666666


Q ss_pred             HHHcc
Q 044786          175 FSQLK  179 (340)
Q Consensus       175 ~~~~~  179 (340)
                      |++..
T Consensus        76 ~~~al   80 (115)
T 2kat_A           76 WESGL   80 (115)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.60  E-value=0.001  Score=42.84  Aligned_cols=61  Identities=15%  Similarity=0.127  Sum_probs=28.1

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                      +..+...+...|++++|++.|++.....      +.+...+..+...+.+.|++++|...++...+.
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELD------PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcC------CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3334444444455555555555544442      223334444444444455555555555444443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.59  E-value=0.00046  Score=47.10  Aligned_cols=78  Identities=12%  Similarity=-0.011  Sum_probs=56.1

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHH
Q 044786           27 AGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEM  103 (340)
Q Consensus        27 ~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m  103 (340)
                      +.|++.|+...+.  -+.+...+..+...+.+.|++++|...|++...   .+...|..+...+...|++++|...|++.
T Consensus         2 ~~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3566677777654  344667777778888888888888888877652   24446777777888888888888888877


Q ss_pred             HHh
Q 044786          104 MKR  106 (340)
Q Consensus       104 ~~~  106 (340)
                      .+.
T Consensus        80 l~~   82 (115)
T 2kat_A           80 LAA   82 (115)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            765

>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=97.54  E-value=0.0029  Score=56.47  Aligned_cols=167  Identities=8%  Similarity=-0.054  Sum_probs=103.3

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHhhcCcC---CcccHHHHHHHHHccc
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQ----------LDTARQLFDEMPLR---DFNSWAVMIVGYVDVA   91 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g   91 (340)
                      .-++|++.++.+...  -+-+..+|+.--.++.+.|+          ++++++.++.+.+.   +..+|+.-...+.+.+
T Consensus        44 ~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcc
Confidence            345667777777765  23345556555555555555          77777777777633   4445666666666777


Q ss_pred             --ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc-chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhh---
Q 044786           92 --DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM-NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKF---  165 (340)
Q Consensus        92 --~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  165 (340)
                        +++++++.++++.+.+      +-+.+.|+.-.....+.| .++++.+.++.+.+..+. +...|+.....+.+.   
T Consensus       122 ~~~~~~el~~~~k~l~~d------~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~  194 (567)
T 1dce_A          122 EPNWARELELCARFLEAD------ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQ  194 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCC
T ss_pred             cccHHHHHHHHHHHHhhc------cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccc
Confidence              5577888888887774      456666666666666666 677777777777666544 555565555544442   


Q ss_pred             -----------cCHHHHHHHHHHcc--cC-ChhhHHHHHHHHhccCchh
Q 044786          166 -----------RCLEDADFVFSQLK--RH-NTVVWTAKIVNNCREGHFH  200 (340)
Q Consensus       166 -----------~~~~~a~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~  200 (340)
                                 +.++++.+.+++..  .| |..+|+-.-..+.+.++.+
T Consensus       195 ~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          195 PDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCS
T ss_pred             ccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCcc
Confidence                       44666766666654  22 5566666666666655533

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.50  E-value=0.00027  Score=47.66  Aligned_cols=61  Identities=8%  Similarity=0.124  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ...+..+...+.+.|++++|.+.|++..   ..+...|..+..++...|++++|++.+++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3445555555555566666666555544   123345555666666666666666666666554

>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=97.49  E-value=0.013  Score=52.32  Aligned_cols=165  Identities=5%  Similarity=-0.115  Sum_probs=123.0

Q ss_pred             CChhHHHHHHhhcCcC---CcccHHHHHHHHHcccC----------hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHH
Q 044786           60 GQLDTARQLFDEMPLR---DFNSWAVMIVGYVDVAD----------YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKA  126 (340)
Q Consensus        60 ~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~  126 (340)
                      ..-++|++.++.+..-   +..+|+.--..+...|+          ++++++.++++.+..      +-+..+|+.-.-.
T Consensus        43 ~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~------pK~y~aW~hR~w~  116 (567)
T 1dce_A           43 ELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN------PKSYGTWHHRCWL  116 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC------TTCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC------CCCHHHHHHHHHH
Confidence            3446789999888743   33457665556666666          899999999999985      5566788877777


Q ss_pred             hhhcc--chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc-CHHHHHHHHHHcccC---ChhhHHHHHHHHhcc----
Q 044786          127 CVCTM--NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR-CLEDADFVFSQLKRH---NTVVWTAKIVNNCRE----  196 (340)
Q Consensus       127 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~----  196 (340)
                      +.+.+  +++++.+.++.+.+.... +...|+.-.-.+.+.| .++++.+.++++.+.   |..+|+.....+.+.    
T Consensus       117 l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~  195 (567)
T 1dce_A          117 LSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQP  195 (567)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCC
T ss_pred             HHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccc
Confidence            77888  679999999999998755 7778877777777888 899999999998765   567787766666553    


Q ss_pred             ----------CchhHHHHHHHHHhhcccCC-ChhhHHHHHHhcccCCc
Q 044786          197 ----------GHFHQVFNDFKEMGRERIKK-NSYTFSSVLKACGGVDD  233 (340)
Q Consensus       197 ----------~~~~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~  233 (340)
                                +.++++++.+++....  .| |...|.-.-..+.+.++
T Consensus       196 ~~~~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          196 DSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CSSSCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHHSCCCC
T ss_pred             cccccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHHhcCCC
Confidence                      5678999999888874  45 45556555555555554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.46  E-value=0.00077  Score=44.75  Aligned_cols=83  Identities=14%  Similarity=0.047  Sum_probs=63.4

Q ss_pred             cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-C-CcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCC-ccchhHHHHHHH
Q 044786          253 DEYVQCGLVDMYGKCRLLRDAERVFELIVD-K-KNIASWNAMLVGYIRNGLYVEATKFLYLMKASGI-QIQESLINDLRI  329 (340)
Q Consensus       253 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~t~~~ll~  329 (340)
                      +...+..+...|.+.|++++|.+.|++... . .+...|..+..+|...|++++|++.|++..+..- .++......+..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~~   85 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQD   85 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHHH
Confidence            567788888899999999999999998876 3 3677888899999999999999999998765532 345555555555


Q ss_pred             HhhhcC
Q 044786          330 ACSSIS  335 (340)
Q Consensus       330 a~~~~g  335 (340)
                      .+...+
T Consensus        86 ~l~~~~   91 (100)
T 3ma5_A           86 AKLKAE   91 (100)
T ss_dssp             HHHHHH
T ss_pred             HHHHcc
Confidence            555444

>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=97.41  E-value=0.00055  Score=49.37  Aligned_cols=97  Identities=11%  Similarity=-0.063  Sum_probs=66.3

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChh----------HHHHHHhhcC--cC-CcccHHHHHHH
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLD----------TARQLFDEMP--LR-DFNSWAVMIVG   86 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~----------~a~~~~~~~~--~~-~~~~~~~li~~   86 (340)
                      ..+.+.+++|.+.++...+.  -+.+...|..+-.++...++++          +|+..|++..  .| +..+|..+..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHH
Confidence            35667889999999998877  3557888888888888877654          7777776655  22 34466677777


Q ss_pred             HHccc-----------ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHH
Q 044786           87 YVDVA-----------DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLK  125 (340)
Q Consensus        87 ~~~~g-----------~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~  125 (340)
                      |...|           ++++|++.|++..+.       .|+...|...+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l-------~P~~~~y~~al~  132 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE-------QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH-------CTTCHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh-------CCCCHHHHHHHH
Confidence            76553           677777777777766       455555544433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.40  E-value=0.0011  Score=42.73  Aligned_cols=61  Identities=16%  Similarity=0.225  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           46 LLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        46 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ...+..+...+.+.|++++|...|++...   .+..++..+...+...|++++|.+.+++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34555566666666667666666666542   23445666667777777777777777777766

>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=97.39  E-value=0.0017  Score=46.79  Aligned_cols=72  Identities=7%  Similarity=-0.097  Sum_probs=45.6

Q ss_pred             HcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchh----------hHHHHHHHHHHcCCCCchhHHHH
Q 044786           88 VDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNME----------LGKQVHGLLFKLGSSRNISLTGS  157 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~----------~a~~~~~~~~~~~~~~~~~~~~~  157 (340)
                      .+.+.+++|.+.+++..+..      +.+...|..+..++...++++          +|+..|++..+.... +...|..
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~------P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~   85 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN------PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWC   85 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHH
Confidence            35567788888888888774      456667777777777776654          666666666555433 4445555


Q ss_pred             HHHHHHhhc
Q 044786          158 LINFYGKFR  166 (340)
Q Consensus       158 l~~~~~~~~  166 (340)
                      +..+|...|
T Consensus        86 LG~ay~~lg   94 (158)
T 1zu2_A           86 IGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            555555543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.31  E-value=0.0013  Score=43.68  Aligned_cols=62  Identities=15%  Similarity=0.131  Sum_probs=31.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +...+..+...+.+.|++++|++.|++..+  | +...|..+..+|...|++++|.+.|++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344445555555555555555555555441  1 3334555555555555555555555555443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.26  E-value=0.011  Score=55.31  Aligned_cols=102  Identities=11%  Similarity=0.039  Sum_probs=49.8

Q ss_pred             HHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHH
Q 044786          162 YGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQM  241 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~  241 (340)
                      ....|++++|.++.+.+.  +...|..+...+.+.++++.|.+.|.++..         |..+...+...++.+. ...+
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~-~~~~  729 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEG-LVTL  729 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHH-HHHH
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHH-HHHH
Confidence            345566666666655442  334566666666666666666666665543         1222223333444322 2333


Q ss_pred             HHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhh
Q 044786          242 HANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIV  281 (340)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  281 (340)
                      .+.....|      -++.-..+|.+.|++++|.+++.++.
T Consensus       730 ~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          730 AKDAETTG------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHcC------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            33333322      12233344555666666666666553

>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=97.20  E-value=0.069  Score=44.29  Aligned_cols=141  Identities=3%  Similarity=-0.200  Sum_probs=87.0

Q ss_pred             cCCcccHHHHHHHHHc--c---cChhHHHHHHHHHHHhhcCCccccch-HHHHHHHHHHhhhccc-----hhhHHH---H
Q 044786           74 LRDFNSWAVMIVGYVD--V---ADYQECITLFAEMMKRKKGHMLLVFP-AWIIVCVLKACVCTMN-----MELGKQ---V  139 (340)
Q Consensus        74 ~~~~~~~~~li~~~~~--~---g~~~~a~~~~~~m~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~-----~~~a~~---~  139 (340)
                      ..+...|...+++...  .   ....+|..+|++..+..       |+ ...+..+.-++.....     -.....   -
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-------P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a  263 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-------PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTE  263 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-------TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-------CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHH
Confidence            4477788888876543  2   34578999999999883       43 3444443333321110     011111   1


Q ss_pred             HHHHHH-cCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc--cCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCC
Q 044786          140 HGLLFK-LGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK--RHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKK  216 (340)
Q Consensus       140 ~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  216 (340)
                      ++.... .....+..+|..+.-.+...|++++|...+++..  .++...|..+-..+...|++++|.+.|++....  .|
T Consensus       264 ~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P  341 (372)
T 3ly7_A          264 IDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RP  341 (372)
T ss_dssp             HHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SC
T ss_pred             HHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CC
Confidence            111111 1124466677777766777788888888888875  455556666677777888888888888887764  57


Q ss_pred             ChhhHHH
Q 044786          217 NSYTFSS  223 (340)
Q Consensus       217 ~~~t~~~  223 (340)
                      ...||..
T Consensus       342 ~~~t~~~  348 (372)
T 3ly7_A          342 GANTLYW  348 (372)
T ss_dssp             SHHHHHH
T ss_pred             CcChHHH
Confidence            6666643

>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=97.06  E-value=0.0087  Score=49.61  Aligned_cols=62  Identities=10%  Similarity=-0.138  Sum_probs=31.1

Q ss_pred             chHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          115 FPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       115 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      .+..+|..+...+...|++++|.+.+++....+  |+...|..+...+.-.|++++|.+.|++.
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~A  336 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTA  336 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            344444444444444455555555555555553  34444444455555555555555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.03  E-value=0.0038  Score=40.93  Aligned_cols=59  Identities=8%  Similarity=0.017  Sum_probs=38.7

Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHH-HHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAW-IIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      ...+...|++++|++.|++..+..      +.+.. .+..+..++...|++++|.+.|+...+...
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~------p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE------PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC------SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC------CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            345566677777777777777663      33445 666666777777777777777777666643

>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=96.93  E-value=0.0019  Score=55.39  Aligned_cols=83  Identities=6%  Similarity=-0.190  Sum_probs=62.0

Q ss_pred             hccchhhHHHHHHHHHHc---CCCC----chhHHHHHHHHHHhhcCHHHHHHHHHHccc----------C-ChhhHHHHH
Q 044786          129 CTMNMELGKQVHGLLFKL---GSSR----NISLTGSLINFYGKFRCLEDADFVFSQLKR----------H-NTVVWTAKI  190 (340)
Q Consensus       129 ~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----------~-~~~~~~~li  190 (340)
                      ..|++++|..++++.++.   -+.|    ...+++.|..+|...|++++|+.++++..+          | ...+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            356788899888877653   1122    235788888999999999999888887652          1 234688888


Q ss_pred             HHHhccCchhHHHHHHHHHhh
Q 044786          191 VNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       191 ~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      ..|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999988888754

>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=96.91  E-value=0.0055  Score=52.58  Aligned_cols=91  Identities=10%  Similarity=0.012  Sum_probs=69.9

Q ss_pred             cccChhHHHHHHHHHHHhhcCCc-cccch-HHHHHHHHHHhhhccchhhHHHHHHHHHHc-----CC-CCc-hhHHHHHH
Q 044786           89 DVADYQECITLFAEMMKRKKGHM-LLVFP-AWIIVCVLKACVCTMNMELGKQVHGLLFKL-----GS-SRN-ISLTGSLI  159 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~-~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~  159 (340)
                      ..|++++|+.++++.++....+. +..|+ ..+++.+..+|...|++++|..++++.++.     |. .|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            45789999999999887642221 11233 458999999999999999999999987643     32 233 35788999


Q ss_pred             HHHHhhcCHHHHHHHHHHcc
Q 044786          160 NFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~  179 (340)
                      ..|...|++++|+.++++..
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            99999999999999988754

>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=96.80  E-value=0.0049  Score=52.93  Aligned_cols=25  Identities=8%  Similarity=-0.045  Sum_probs=13.2

Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                      +++.+..+|...|++++|+.++++.
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~  355 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRT  355 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHH
Confidence            4555555555555555555555544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.78  E-value=0.041  Score=51.35  Aligned_cols=155  Identities=10%  Similarity=0.034  Sum_probs=75.1

Q ss_pred             HHhhhccchhhHHH-HHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHH
Q 044786           18 KECTFQKDSAGAFE-LLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        18 ~~~~~~~~~~~a~~-~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a   96 (340)
                      ......++++.|.+ ++..+      + +......++..+.+.|..++|.++.+.-        ..-.......|+++.|
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~-~~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A  671 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------E-GKDSLTKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLA  671 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------C-CHHHHHHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------C-chHHHHHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHH
Confidence            33345677877766 44211      1 0112255566666667766666654321        1112233455666666


Q ss_pred             HHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      .++.+.           ..+...|..+...+.+.++++.|.+.|..+..         |..+...|...|+.+...++-+
T Consensus       672 ~~~~~~-----------~~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~  731 (814)
T 3mkq_A          672 RDLLTD-----------ESAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAK  731 (814)
T ss_dssp             HHHHTT-----------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHh-----------hCcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHH
Confidence            665332           23445666666666666666666666665432         2233333444444444433333


Q ss_pred             HcccCChhhHHHHHHHHhccCchhHHHHHHHHH
Q 044786          177 QLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       177 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                      .....+  -++.-..+|.+.|++++|++++.++
T Consensus       732 ~a~~~~--~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          732 DAETTG--KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHTT--CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHcC--chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            322221  1222333344455555555555444

>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=96.65  E-value=0.0098  Score=51.05  Aligned_cols=90  Identities=7%  Similarity=-0.066  Sum_probs=54.7

Q ss_pred             HHHHHhcCChhHHHHHHhhcCc-------C-C---cccHHHHHHHHHcccChhHHHHHHHHHHHhh---cCCccccch-H
Q 044786           53 LLMHVSCGQLDTARQLFDEMPL-------R-D---FNSWAVMIVGYVDVADYQECITLFAEMMKRK---KGHMLLVFP-A  117 (340)
Q Consensus        53 i~~~~~~~~~~~a~~~~~~~~~-------~-~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~-~  117 (340)
                      +.-+.+.|++++|++++++...       + +   ..+++.+...|...|++++|+.++++.+...   .|.  ..|+ .
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~--~Hp~~a  371 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPG--SHPVRG  371 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCS--SCHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCC--CChHHH
Confidence            4445566777777777765541       1 1   1257777777777788888877777766542   111  1222 3


Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHH
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLF  144 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~  144 (340)
                      .+++.|...|...|++++|..++++..
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            366666666777777777766666543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.56  E-value=0.0032  Score=41.34  Aligned_cols=55  Identities=16%  Similarity=0.004  Sum_probs=35.8

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHhcCChhHHHHHHhhcC
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPTLL-FLNRLLLMHVSCGQLDTARQLFDEMP   73 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~   73 (340)
                      ...+.+.|++++|.+.|+...+.  .+.+.. .+..+..++...|++++|.+.|++..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455667777777777777665  233445 66666666777777777777776665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.48  E-value=0.025  Score=36.78  Aligned_cols=67  Identities=10%  Similarity=-0.052  Sum_probs=52.5

Q ss_pred             CccHHHHHHHHHHHhccCC---HHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCC
Q 044786          251 ESDEYVQCGLVDMYGKCRL---LRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGI  317 (340)
Q Consensus       251 ~~~~~~~~~li~~~~~~~~---~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  317 (340)
                      +.++..+..+..++...++   .++|..++++...  +.++.....+...+.+.|++++|+..|+++.+..-
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            3466677777777754444   7899999988876  34777888888899999999999999999987743

>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=96.32  E-value=0.1  Score=41.62  Aligned_cols=141  Identities=9%  Similarity=-0.020  Sum_probs=83.0

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHH------HHhcCChhHHHHHHhhcCcCCcc--cHHHHHHHH-Hc--cc--
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLM------HVSCGQLDTARQLFDEMPLRDFN--SWAVMIVGY-VD--VA--   91 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~------~~~~~~~~~a~~~~~~~~~~~~~--~~~~li~~~-~~--~g--   91 (340)
                      +..+|.+++.+.... +.       ..|-..      -.+.++..+..+.+.+....++.  .|..++.+- ..  .|  
T Consensus       102 ~~~RA~~Ly~ra~~y-~~-------raL~~~~~~~~~~~~~~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~  173 (301)
T 3u64_A          102 AYSRARKLYLRGARY-AL-------SSLETAYPGFTREVFSGDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGS  173 (301)
T ss_dssp             HHHHHHHHHHHHHHH-HH-------HHHHHHSTTHHHHHTSSCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTS
T ss_pred             hHHHHHHHHHHHHHH-HH-------HHHHHhCccHHHHHHhcchhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCCh
Confidence            355667777666655 21       111111      22344555566666666655544  466655432 22  23  


Q ss_pred             ----ChhHHHHHHHHHHHhhcCCccccch---HHHHHHHHHHhhhc-----cchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           92 ----DYQECITLFAEMMKRKKGHMLLVFP---AWIIVCVLKACVCT-----MNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        92 ----~~~~a~~~~~~m~~~~~~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                          ....|...+++..+.       .|+   ...|..+...|.+.     |+.++|.+.|++.++.+..-+..++....
T Consensus       174 ~Al~~l~~A~a~lerAleL-------DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA  246 (301)
T 3u64_A          174 ALPDTVHAAVMMLERACDL-------WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYA  246 (301)
T ss_dssp             CCHHHHHHHHHHHHHHHHH-------CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHh-------CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHH
Confidence                345677777777776       344   55777777777774     77778888777777776543455666666


Q ss_pred             HHHHhh-cCHHHHHHHHHHccc
Q 044786          160 NFYGKF-RCLEDADFVFSQLKR  180 (340)
Q Consensus       160 ~~~~~~-~~~~~a~~~~~~~~~  180 (340)
                      +.++.. |+.+++.+.+++...
T Consensus       247 ~~l~~~~gd~~~a~~~L~kAL~  268 (301)
T 3u64_A          247 DALCIPLNNRAGFDEALDRALA  268 (301)
T ss_dssp             HHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHc
Confidence            666663 667777777766553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.11  E-value=0.26  Score=36.10  Aligned_cols=129  Identities=12%  Similarity=-0.016  Sum_probs=78.8

Q ss_pred             HHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHH
Q 044786          160 NFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGR  239 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~  239 (340)
                      +.....|+++.|.++.+++  .+...|..+.....+.|+++-|.+.|.+...         +..+.-.|...|+.+. ..
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~-L~   80 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK-LS   80 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH-HH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH-HH
Confidence            4455678888888777765  3566788888888888888888888877754         2334444444555433 33


Q ss_pred             HHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHHcCchHHHHHHHHHH
Q 044786          240 QMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKKNIASWNAMLVGYIRNGLYVEATKFLYLM  312 (340)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  312 (340)
                      .+.+.....|      -++.-...+.-.|+++++.++|.+...-|...      ......|-.+.|.++.+++
T Consensus        81 kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            4433333333      23455556667789999999887765322111      1112356666777777665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.85  E-value=0.34  Score=35.43  Aligned_cols=128  Identities=9%  Similarity=0.025  Sum_probs=65.0

Q ss_pred             HHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchh
Q 044786           55 MHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNME  134 (340)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  134 (340)
                      .....|+++.|.++.+.+  .+...|..|.......|+++-|.++|.+...-              ..+.-.|.-.|+.+
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D~--------------~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHSF--------------DKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCH--------------HHHHHHHHHHTCHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCCH--------------HHHHHHHHHhCCHH
Confidence            344556666666665554  34445666666666666666666666665322              12222333344444


Q ss_pred             hHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHH
Q 044786          135 LGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEM  209 (340)
Q Consensus       135 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  209 (340)
                      ...++-+.....|      -++.....+...|+++++.++|.+..+....     .......|..+.|.++.+++
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA-----~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLA-----YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHH-----HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHH-----HHHHHHcCcHHHHHHHHHHh
Confidence            4444433333333      1344445556667777777776654432111     11111245555666665554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.78  E-value=0.055  Score=35.09  Aligned_cols=49  Identities=8%  Similarity=0.112  Sum_probs=27.1

Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .++|..++++.+..+      +-+......+...+.+.|++++|...|+.+.+..
T Consensus        25 ~~~A~~~l~~AL~~d------p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A           25 TDEVSLLLEQALQLE------PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHC------cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            455666666665553      3344455555555555666666666665555543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.60  E-value=0.34  Score=33.59  Aligned_cols=129  Identities=12%  Similarity=0.008  Sum_probs=69.3

Q ss_pred             cchhHHHHHH--hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc-------------
Q 044786           10 TDMYTCLIKE--CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL-------------   74 (340)
Q Consensus        10 ~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-------------   74 (340)
                      .++...++.+  ..-.|..++..++.....+. .   +..-||-+|.-....-+-+-..+.++.+-+             
T Consensus         5 ~el~kkLmeAK~~ildG~v~qGveii~k~~~s-s---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrV   80 (172)
T 1wy6_A            5 SEIIRKLMDAKKFLLDGYIDEGVKIVLEITKS-S---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSV   80 (172)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-S---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHcCC-C---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHH
Confidence            3444555555  34468888888888887766 2   445555555555544455555555544431             


Q ss_pred             --------CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc
Q 044786           75 --------RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL  146 (340)
Q Consensus        75 --------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  146 (340)
                              .+....+..+......|.-++-.+++..+....      +|+......+..+|.+.|+..++.+++.+.-+.
T Consensus        81 i~C~~~~n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~------~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           81 VECGVINNTLNEHVNKALDILVIQGKRDKLEEIGREILKNN------EVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C------CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHhccHhHHHHHHHHHhccC------CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence                    122234445555555555555555555543221      455555555555555555555555555555555


Q ss_pred             CC
Q 044786          147 GS  148 (340)
Q Consensus       147 ~~  148 (340)
                      |+
T Consensus       155 G~  156 (172)
T 1wy6_A          155 GE  156 (172)
T ss_dssp             TC
T ss_pred             hh
Confidence            54

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.34  E-value=0.00042  Score=58.95  Aligned_cols=238  Identities=11%  Similarity=0.106  Sum_probs=160.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHH
Q 044786           45 TLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVL  124 (340)
Q Consensus        45 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll  124 (340)
                      .+.+|..|..+..+.+++.+|++.|  ++..|+..|..+|....+.|.+++-++.+...++.       .-+..+=+.|+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-------~ke~~IDteLi  123 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKK-------ARESYVETELI  123 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-------CCSTTTTHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-------hcccccHHHHH
Confidence            3457778888888888888887754  44567778888999999999999888888777655       22333335688


Q ss_pred             HHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc------------------------
Q 044786          125 KACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR------------------------  180 (340)
Q Consensus       125 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------------------------  180 (340)
                      -+|++.+++.+.++++.       .|+..-...+.+-|...|.++.|.-+|..+..                        
T Consensus       124 ~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKA  196 (624)
T 3lvg_A          124 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKA  196 (624)
T ss_dssp             HHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTC
T ss_pred             HHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            88888888776555432       35555556677777777888877777766542                        


Q ss_pred             CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCC-CccHHHHHH
Q 044786          181 HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGL-ESDEYVQCG  259 (340)
Q Consensus       181 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  259 (340)
                      .++.||..+-.+|...+.+.-|.-.--.+.   +.||  ....++..|...|.+++ ...+++.-.  |. .....+|+-
T Consensus       197 ns~ktWKeV~~ACvd~~EfrLAqicGLniI---vhad--eL~elv~~YE~~G~f~E-LIsLlEagl--glErAHmGmFTE  268 (624)
T 3lvg_A          197 NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEELINYYQDRGYFEE-LITMLEAAL--GLERAHMGMFTE  268 (624)
T ss_dssp             CSSCSHHHHTHHHHHSCTTTTTTHHHHHHH---CCSS--CCSGGGSSSSTTCCCTT-STTTHHHHT--TSTTCCHHHHHH
T ss_pred             CChhHHHHHHHHHhCchHHHHHHHhcchhc---ccHH--HHHHHHHHHHhCCCHHH-HHHHHHHHh--CCCchhHHHHHH
Confidence            267789999999999998887754433333   1232  23356777888898877 444444322  22 346778888


Q ss_pred             HHHHHhccCCHHHHHHHHHHhhcC---C-------cHHHHHHHHHHHHHcCchHHHHH
Q 044786          260 LVDMYGKCRLLRDAERVFELIVDK---K-------NIASWNAMLVGYIRNGLYVEATK  307 (340)
Q Consensus       260 li~~~~~~~~~~~A~~~~~~~~~~---~-------~~~~~~~li~~~~~~~~~~~a~~  307 (340)
                      |.-.|++- ++++..+-++..-.+   |       ....|.-++-.|++-.+++.|..
T Consensus       269 LaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          269 LAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            88888875 444444444333222   2       44568888888888888887643

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.29  E-value=0.083  Score=34.98  Aligned_cols=28  Identities=7%  Similarity=0.133  Sum_probs=16.8

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ++..+..++.+.|+++.|...+++..+.
T Consensus        48 i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A           48 VLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3555555666666666666666666555

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.28  E-value=0.067  Score=38.14  Aligned_cols=80  Identities=13%  Similarity=-0.068  Sum_probs=45.2

Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhcc---chhhHHHHHHHHHHcCCCC--chhHHHHHHHHHHhhcC
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTM---NMELGKQVHGLLFKLGSSR--NISLTGSLINFYGKFRC  167 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~  167 (340)
                      ...+.+-|.+....+      .++..+...+..++++++   +++++..+++...+.. .|  ....+..+.-+|.+.|+
T Consensus        14 l~~~~~~y~~e~~~~------~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~   86 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG------SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKE   86 (152)
T ss_dssp             HHHHHHHHHHHHHTT------CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHccC------CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccC
Confidence            344455555554443      355566666666666655   5667777777766654 22  23334444555566666


Q ss_pred             HHHHHHHHHHcc
Q 044786          168 LEDADFVFSQLK  179 (340)
Q Consensus       168 ~~~a~~~~~~~~  179 (340)
                      +++|.+.++.+.
T Consensus        87 Y~~A~~y~~~lL   98 (152)
T 1pc2_A           87 YEKALKYVRGLL   98 (152)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.26  E-value=0.15  Score=33.74  Aligned_cols=69  Identities=9%  Similarity=-0.024  Sum_probs=47.6

Q ss_pred             HHHHHHHHHcccChhHHHHHHHHHHHhhcCCc-cccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           80 WAVMIVGYVDVADYQECITLFAEMMKRKKGHM-LLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        80 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      +-.|...+.+.|++..|...|++..+...... .-.+...++..+..++.+.|+++.|...+++..+..+
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P   77 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            45567777888888888888888776521100 0024556777788888888888888888887776643

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.95  E-value=1.6  Score=42.64  Aligned_cols=206  Identities=9%  Similarity=-0.008  Sum_probs=97.3

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC----Cc-------------
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR----DF-------------   77 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-------------   77 (340)
                      .++..+...+..+.+.++..+.      +-+....-.+..++...|++++|.++|++....    +.             
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~------~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL------NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS------CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc------cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            3455555566666665544332      223333334556677888888888888776411    00             


Q ss_pred             ---------ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           78 ---------NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        78 ---------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                               .-|..++..+-+.+.++.+.++-....+.. +..........|..+.+++...|++++|...+-.+.....
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~-~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~  969 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASK-ETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL  969 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHC-CSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-cCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH
Confidence                     013444445555555555555544444432 1100000112345555555555555555555444433322


Q ss_pred             CCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcc--cCCChhhHHHHHH
Q 044786          149 SRNISLTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRER--IKKNSYTFSSVLK  226 (340)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~t~~~ll~  226 (340)
                      +  ......|+...|..|..+.-..                   +--.|..++..+++....+..  +.....-|..|-.
T Consensus       970 r--~~cLr~LV~~lce~~~~~~L~~-------------------lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs 1028 (1139)
T 4fhn_B          970 K--KSCLLDFVNQLTKQGKINQLLN-------------------YSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFS 1028 (1139)
T ss_dssp             C--HHHHHHHHHHHHHHCCHHHHHH-------------------HTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHhCCChhhhhC-------------------CCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHh
Confidence            2  2233444444444444322111                   112334444444443322211  1111122444444


Q ss_pred             hcccCCchhchHHHHHHHHHHh
Q 044786          227 ACGGVDDDGNCGRQMHANIVKI  248 (340)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~  248 (340)
                      -+...|++..||..+++...+.
T Consensus      1029 ~ri~r~dyR~AA~vmYe~~~RL 1050 (1139)
T 4fhn_B         1029 WRYKHQNYRDAAAIIYEKLSRY 1050 (1139)
T ss_dssp             HHHHHHTTSCHHHHHHHHHHHH
T ss_pred             hhhccCChHHHHHHHHHHHHHh
Confidence            4566777778888888877654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.75  E-value=0.66  Score=32.19  Aligned_cols=65  Identities=15%  Similarity=-0.002  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCc
Q 044786          254 EYVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       254 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  318 (340)
                      ...+..-++.+...|+-+.-.++...+..  +|++...-.+..+|.+.|+..+|-+++.+..++|++
T Consensus        91 se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           91 NEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            34445667777888999999999999533  467888888999999999999999999999999976

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.54  E-value=0.095  Score=37.35  Aligned_cols=81  Identities=9%  Similarity=0.078  Sum_probs=51.8

Q ss_pred             cchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC---ChhHHHHHHhhcCcCC-----cccHHHHHHHHHcccChhH
Q 044786           24 KDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG---QLDTARQLFDEMPLRD-----FNSWAVMIVGYVDVADYQE   95 (340)
Q Consensus        24 ~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~   95 (340)
                      .....+.+-|...... |. ++..+.-.+-.++++.+   +++++..+|+.+.+.+     ...+-.+.-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~~-~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHT-TC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            3445555666655554 43 56666666666777766   5567777777766433     2234455566677788888


Q ss_pred             HHHHHHHHHHh
Q 044786           96 CITLFAEMMKR  106 (340)
Q Consensus        96 a~~~~~~m~~~  106 (340)
                      |.+.++.+++.
T Consensus        90 A~~y~~~lL~i  100 (152)
T 1pc2_A           90 ALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            88888887777

>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=94.30  E-value=0.21  Score=42.14  Aligned_cols=69  Identities=13%  Similarity=0.123  Sum_probs=57.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHH-----cCCccchhHHH
Q 044786          257 QCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKA-----SGIQIQESLIN  325 (340)
Q Consensus       257 ~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~t~~  325 (340)
                      ...++..+...|+.++|...++.+.. .| +...|..+|.+|.+.|+..+|++.|++...     .|+.|++.+-.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            44677888899999999988887765 34 778999999999999999999999998754     49999887643

>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=94.08  E-value=0.29  Score=39.01  Aligned_cols=89  Identities=10%  Similarity=-0.009  Sum_probs=70.5

Q ss_pred             hhHHHHHHhhcCcCCcc-----cHHHHHHHHHc-----ccChhHHHHHHHHHHHhhcCCccccc--hHHHHHHHHHHhhh
Q 044786           62 LDTARQLFDEMPLRDFN-----SWAVMIVGYVD-----VADYQECITLFAEMMKRKKGHMLLVF--PAWIIVCVLKACVC  129 (340)
Q Consensus        62 ~~~a~~~~~~~~~~~~~-----~~~~li~~~~~-----~g~~~~a~~~~~~m~~~~~~~~~~~~--~~~~~~~ll~~~~~  129 (340)
                      ...|...+++..+-|+.     .|..+...|..     .|+.++|.+.|++.++.       .|  +..++......++.
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L-------nP~~~id~~v~YA~~l~~  251 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY-------CSAHDPDHHITYADALCI  251 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH-------CCTTCSHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh-------CCCCCchHHHHHHHHHHH
Confidence            45677777777644443     78899999988     49999999999999999       45  36778888888888


Q ss_pred             c-cchhhHHHHHHHHHHcCCC--CchhHHHH
Q 044786          130 T-MNMELGKQVHGLLFKLGSS--RNISLTGS  157 (340)
Q Consensus       130 ~-~~~~~a~~~~~~~~~~~~~--~~~~~~~~  157 (340)
                      . |+.+++.+.+++..+....  |+....+.
T Consensus       252 ~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          252 PLNNRAGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             TTTCHHHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             hcCCHHHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            5 9999999999999998877  66544443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.78  E-value=0.0056  Score=52.29  Aligned_cols=57  Identities=11%  Similarity=0.169  Sum_probs=44.1

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQL   68 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~   68 (340)
                      |+..|..+|.++.+.|.+++-...+...++. .-.|.  .=+.|+-+|++.+++.+.+++
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~ke~~--IDteLi~ayAk~~rL~elEef  138 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKK-ARESY--VETELIFALAKTNRLAELEEF  138 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CCSTT--TTHHHHHHHHTSCSSSTTTST
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hcccc--cHHHHHHHHHhhCcHHHHHHH
Confidence            6778899999999999999999988877765 44444  444889999999887665443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.24  E-value=1.3  Score=40.80  Aligned_cols=52  Identities=15%  Similarity=0.054  Sum_probs=42.9

Q ss_pred             HHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHH
Q 044786          262 DMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       262 ~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      +.+.+.|+++.|.++-++... .| +-.+|..|..+|.+.|+++.|+-.++.+.
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            345567899999999888765 35 67799999999999999999999888873

>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=93.24  E-value=1.2  Score=31.56  Aligned_cols=37  Identities=5%  Similarity=0.045  Sum_probs=24.8

Q ss_pred             CCCcchhHHHHHHhhhccch------hhHHHHHHHHHhhcCCCCC
Q 044786            7 PITTDMYTCLIKECTFQKDS------AGAFELLNHIRKRVNIKPT   45 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~g~~~~   45 (340)
                      +.|.++|-..+...-+.|+.      ++..++|++....  ++|+
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~--~Pp~   52 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA--LPPD   52 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH--SCGG
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc--CCcc
Confidence            34566676777776666777      6777777777665  6664

>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=93.11  E-value=0.44  Score=40.19  Aligned_cols=67  Identities=7%  Similarity=-0.023  Sum_probs=50.8

Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHH-----cCCCCchhH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFK-----LGSSRNISL  154 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  154 (340)
                      .++..+...|++++++..+..+....      +.+...+..+|.++.+.|+..+|.+.|+...+     .|+.|+..+
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~------P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEH------PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            34556677888888888888887774      56777888888888888888888888876643     488887655

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.92  E-value=1.6  Score=40.13  Aligned_cols=130  Identities=13%  Similarity=0.028  Sum_probs=82.7

Q ss_pred             HHHHHHHHHhcCC-hhHHHHHHhhcCcCCccc---H-HHHHHHHHccc-ChhHHHHHHHHHHHhh----cCCccc-----
Q 044786           49 LNRLLLMHVSCGQ-LDTARQLFDEMPLRDFNS---W-AVMIVGYVDVA-DYQECITLFAEMMKRK----KGHMLL-----  113 (340)
Q Consensus        49 ~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~---~-~~li~~~~~~g-~~~~a~~~~~~m~~~~----~~~~~~-----  113 (340)
                      ...|+..+...++ .+.|..+|+++...++..   + ..++..+...+ +--+|.+++.+..+.-    ...+..     
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3455555555666 588999999988655432   2 22333333333 2335666666655320    000000     


Q ss_pred             ---cchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          114 ---VFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       114 ---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                         +.+......-.+.|...|+++.|+++-++.+..-+. +-.+|..|..+|.+.|+++.|+-.++.++
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence               011123333345566789999999999998887533 56799999999999999999999999875

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.34  E-value=4.9  Score=34.51  Aligned_cols=93  Identities=8%  Similarity=-0.019  Sum_probs=48.0

Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHc--CCCCc---hhHHHHHHHHHHhhcCHHHHHHHHHHccc-----C-----C
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKL--GSSRN---ISLTGSLINFYGKFRCLEDADFVFSQLKR-----H-----N  182 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~-----~  182 (340)
                      .....|...+...|++.+|..++..+...  +....   ...+...+..|...+++.+|..+++++..     +     -
T Consensus       138 rl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk  217 (445)
T 4b4t_P          138 RVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLK  217 (445)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHH
Confidence            34455556666666666666666555422  21111   22444555666666666666665555421     0     1


Q ss_pred             hhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          183 TVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       183 ~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      ...+..++..+...+++.+|...|.+..
T Consensus       218 ~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          218 LEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            1234455555555666666666655554

>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=92.33  E-value=2.1  Score=30.29  Aligned_cols=33  Identities=6%  Similarity=0.205  Sum_probs=23.5

Q ss_pred             cCCcccHHHHHHHHHcccCh------hHHHHHHHHHHHh
Q 044786           74 LRDFNSWAVMIVGYVDVADY------QECITLFAEMMKR  106 (340)
Q Consensus        74 ~~~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~  106 (340)
                      ..|..+|-..+...-+.|++      ++..++|++....
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~   48 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA   48 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc
Confidence            34666777777777667777      7777888877766

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.92  E-value=8.8  Score=37.52  Aligned_cols=52  Identities=13%  Similarity=0.077  Sum_probs=35.1

Q ss_pred             HHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHH
Q 044786           51 RLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEM  103 (340)
Q Consensus        51 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  103 (340)
                      .++..+.+.+..+.+.++.... +.+...--.+..++...|++++|.+.|.+.
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-~~~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-NSDPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-cCCcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            3455566667777777655444 344444445667788899999999999764

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.64  E-value=0.94  Score=31.00  Aligned_cols=22  Identities=14%  Similarity=0.252  Sum_probs=11.3

Q ss_pred             HHHHhccCchhHHHHHHHHHhh
Q 044786          190 IVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       190 i~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      .-++.+.|++++|.+.++.+.+
T Consensus        81 Avg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           81 AVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHH
Confidence            3344455555555555555544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.71  E-value=7.4  Score=33.39  Aligned_cols=98  Identities=8%  Similarity=0.053  Sum_probs=58.6

Q ss_pred             HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHH----cCCCCc--hhH
Q 044786           81 AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFK----LGSSRN--ISL  154 (340)
Q Consensus        81 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~  154 (340)
                      ..|...+...|++.+|.+++..+...-.|.....--...+...++.|...+++..|..++..+..    ....|+  ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            34566677777777777777777776544422111234566666777777777777777766532    122222  234


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHc
Q 044786          155 TGSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                      |...+..+...+++.+|.+.|.+.
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHH
Confidence            455666666677777776665544

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=89.61  E-value=0.82  Score=29.70  Aligned_cols=62  Identities=10%  Similarity=0.086  Sum_probs=48.7

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHH
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGY   87 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   87 (340)
                      |.=+..+-+..+... .+-|++.+..+.+.+|-|.+++..|.++|+.++.   ....+|..++.-.
T Consensus        25 D~~e~rrglN~l~~~-DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lqEl   89 (109)
T 1v54_E           25 DAWELRKGMNTLVGY-DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQEL   89 (109)
T ss_dssp             CHHHHHHHHHHHTTS-SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence            444566667777766 7899999999999999999999999999998872   2344688777643

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.48  E-value=3  Score=26.99  Aligned_cols=87  Identities=10%  Similarity=-0.001  Sum_probs=65.6

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHHHHHHHH--HHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLLFLNRLL--LMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLF  100 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  100 (340)
                      ....++|..+-+++... +-    .-...+|  ..+...|++++|..+.+....||..+|-+|-.  .+.|..+++...+
T Consensus        19 ~H~HqEA~tIAdwL~~~-~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL   91 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERL-GQ----DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRL   91 (115)
T ss_dssp             TTCHHHHHHHHHHHHHT-TC----HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhC-Cc----HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHH
Confidence            34788999999999877 43    3333444  45678899999999999999999999887754  5778888888888


Q ss_pred             HHHHHhhcCCccccchHHHHHH
Q 044786          101 AEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus       101 ~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      .++-..|      .|....|..
T Consensus        92 ~~la~sg------~p~~q~Fa~  107 (115)
T 2uwj_G           92 AGLGGSS------DPALADFAA  107 (115)
T ss_dssp             HHHHTCS------SHHHHHHHH
T ss_pred             HHHHhCC------CHHHHHHHH
Confidence            7887765      465555543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.28  E-value=7.6  Score=31.40  Aligned_cols=149  Identities=13%  Similarity=0.071  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHH----HHHHhhcccCCChhhHHHHHHhcc
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFND----FKEMGRERIKKNSYTFSSVLKACG  229 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~t~~~ll~~~~  229 (340)
                      .|.++..=|.+.+++++|.+++..-           ...+.+.|+...|.++    ++-..+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            4455666677888888888875532           2334455665555554    444555678888777777776665


Q ss_pred             cCCchh----chHHHHHHHHHHhCCC--ccHHHHHHHHHHHhccCCHHHHHHHHHHhh----------------cC--Cc
Q 044786          230 GVDDDG----NCGRQMHANIVKIGLE--SDEYVQCGLVDMYGKCRLLRDAERVFELIV----------------DK--KN  285 (340)
Q Consensus       230 ~~~~~~----~~~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~~~----------------~~--~~  285 (340)
                      .....+    +.......+..+.|-.  -++.....+...|.+.|++.+|+.-|-.-.                ..  ..
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~  183 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIE  183 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCC
Confidence            433221    2233444444454432  277778888889999999999888663110                11  11


Q ss_pred             HHHH----HHHHHHHHHcCchHHHHHHHHHHH
Q 044786          286 IASW----NAMLVGYIRNGLYVEATKFLYLMK  313 (340)
Q Consensus       286 ~~~~----~~li~~~~~~~~~~~a~~~~~~m~  313 (340)
                      ....    ...+-.|.-.|+...|..+++...
T Consensus       184 ~~e~dlf~~RaVL~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          184 DSTVAEFFSRLVFNYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            1111    122334556778888888877764

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=89.13  E-value=3.2  Score=26.89  Aligned_cols=87  Identities=9%  Similarity=0.037  Sum_probs=64.7

Q ss_pred             ccchhhHHHHHHHHHhhcCCCCCHHHHHHHH--HHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHH
Q 044786           23 QKDSAGAFELLNHIRKRVNIKPTLLFLNRLL--LMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLF  100 (340)
Q Consensus        23 ~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  100 (340)
                      ....++|..+-+++... +-    .-...||  ..+...|++++|..+.+....||..+|-+|-.  .+.|..+++...+
T Consensus        20 ~H~HqEA~tIAdwL~~~-~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL   92 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLK-GE----EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRL   92 (116)
T ss_dssp             TTCHHHHHHHHHHHHHT-TC----HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhC-Cc----HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHH
Confidence            44788999999999877 43    3333444  45678899999999999999999999887754  4677778888777


Q ss_pred             HHHHHhhcCCccccchHHHHHH
Q 044786          101 AEMMKRKKGHMLLVFPAWIIVC  122 (340)
Q Consensus       101 ~~m~~~~~~~~~~~~~~~~~~~  122 (340)
                      .++-..|      .|....|..
T Consensus        93 ~~la~sg------~p~~q~Fa~  108 (116)
T 2p58_C           93 NRLARSQ------DPRIQTFVN  108 (116)
T ss_dssp             HHHTTCC------CHHHHHHHH
T ss_pred             HHHHhCC------CHHHHHHHH
Confidence            7776664      455555443

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=88.49  E-value=3.7  Score=26.74  Aligned_cols=57  Identities=14%  Similarity=0.153  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAMLV  294 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li~  294 (340)
                      ...-++.+....+-|++.+..+.+++|-+.+++..|.++|+.++.+  +...+|..+++
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           29 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            5555666667778888888888888888888888888888888763  23334555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=87.65  E-value=5.1  Score=27.39  Aligned_cols=89  Identities=10%  Similarity=0.068  Sum_probs=58.3

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhH---HHHHHhhcCcCC-c----ccHHHHHHHH
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDT---ARQLFDEMPLRD-F----NSWAVMIVGY   87 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~-~----~~~~~li~~~   87 (340)
                      ++..-........+.+-|...... |. |+..+--.+..++.+.++...   ++.+++.+...+ +    ...-.|.-++
T Consensus         7 ~l~~~~~~~~l~~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~   84 (126)
T 1nzn_A            7 VLNELVSVEDLLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   84 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHhccCCHHHHHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            344444445566666666666655 44 566666666667777766555   778888777544 2    1233456677


Q ss_pred             HcccChhHHHHHHHHHHHh
Q 044786           88 VDVADYQECITLFAEMMKR  106 (340)
Q Consensus        88 ~~~g~~~~a~~~~~~m~~~  106 (340)
                      .+.|++++|.+.++.+++.
T Consensus        85 yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           85 YRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHHh
Confidence            8888888888888888887

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.17  E-value=11  Score=30.77  Aligned_cols=113  Identities=12%  Similarity=-0.006  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHH----HHHhhcccCCChhhHHHHHHhcc
Q 044786          154 LTGSLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDF----KEMGRERIKKNSYTFSSVLKACG  229 (340)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~~~~p~~~t~~~ll~~~~  229 (340)
                      +|.++..=|.+.+++++|.+++..-           ...+.+.|+...|.++-    +-..+.++++|......++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            4455666677888888888775431           23344455555444443    44455677777777766666665


Q ss_pred             cCCchh----chHHHHHHHHHHhCCCc--cHHHHHHHHHHHhccCCHHHHHHHH
Q 044786          230 GVDDDG----NCGRQMHANIVKIGLES--DEYVQCGLVDMYGKCRLLRDAERVF  277 (340)
Q Consensus       230 ~~~~~~----~~~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~  277 (340)
                      ....-+    ........+-.+.|-.|  ++..-..+...|.+.+++.+|+.-|
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            544321    11223334444544333  6667777888888888888887765

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=87.13  E-value=17  Score=32.77  Aligned_cols=269  Identities=9%  Similarity=-0.019  Sum_probs=136.9

Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCC
Q 044786           31 ELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGH  110 (340)
Q Consensus        31 ~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  110 (340)
                      ++-..+.+..+.+.....-+.-+..+.+.+++......+.. ...+...-.....+....|+..+|......+-..+   
T Consensus        57 ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~---  132 (618)
T 1qsa_A           57 TVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG---  132 (618)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS---
T ss_pred             HHHHHHHHCCCChhHHHHHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC---
Confidence            34444444323333334445666667777788877776665 33344444456667777788777777666666554   


Q ss_pred             ccccchHHHHHHHHHHhhhccchhhH--HHHHHHHHHcC-----------CCCchh-HHHHHHHHHHhhcCHHHHHHHHH
Q 044786          111 MLLVFPAWIIVCVLKACVCTMNMELG--KQVHGLLFKLG-----------SSRNIS-LTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus       111 ~~~~~~~~~~~~ll~~~~~~~~~~~a--~~~~~~~~~~~-----------~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                         ......+..++..+.+.|.+...  .+=++.+...|           +.++.. ....++..+.   +...+.....
T Consensus       133 ---~~~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~---~p~~~~~~~~  206 (618)
T 1qsa_A          133 ---KSQPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFAR  206 (618)
T ss_dssp             ---SCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHH
T ss_pred             ---CCCcHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHh---ChHhHHHHHh
Confidence               33344556666666655544332  12122222222           111110 0111111111   1111122211


Q ss_pred             HcccCChh---hHHHHHHHHhccCchhHHHHHHHHHhhcc-cCCCh--hhHHHHHHhcccCCchhchHHHHHHHHHHhCC
Q 044786          177 QLKRHNTV---VWTAKIVNNCREGHFHQVFNDFKEMGRER-IKKNS--YTFSSVLKACGGVDDDGNCGRQMHANIVKIGL  250 (340)
Q Consensus       177 ~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~  250 (340)
                      .. .++..   .+..-+.-+.+ .+.+.|...+....... +.+..  .....+.......+...+ +...+......  
T Consensus       207 ~~-~~~~~~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~-~~~~~~~~~~~--  281 (618)
T 1qsa_A          207 TT-GATDFTRQMAAVAFASVAR-QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDE-QAKWRDDAIMR--  281 (618)
T ss_dssp             HS-CCCHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHH-HHHHHHHHHHT--
T ss_pred             cc-CCChhhHHHHHHHHHHHHh-cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChH-HHHHHHhcccc--
Confidence            11 11111   11112333333 37799999998886543 22221  123344445555562224 33344333332  


Q ss_pred             CccHHHHHHHHHHHhccCCHHHHHHHHHHhhcCC-cHHHH-HHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          251 ESDEYVQCGLVDMYGKCRLLRDAERVFELIVDKK-NIASW-NAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       251 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      .++.......+....+.|+++.|.+.|+.|...+ +..-| -=+..++...|+.++|..+|+++..
T Consensus       282 ~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          282 SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCChHHHHHHHHHHHHCCCHHHHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            2344444555666668899999999999997542 22211 1234577789999999999999864

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.18  E-value=6.6  Score=33.50  Aligned_cols=97  Identities=7%  Similarity=0.021  Sum_probs=53.7

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc---CCCCchhHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL---GSSRNISLT  155 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~  155 (340)
                      ++..+..-|.+.|++++|.+.|.++...-.+.   .--...+-.+++.+...+++..+...+......   +..|+...-
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~---~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~  209 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAIST---GAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNR  209 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCC---CSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCh---HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHH
Confidence            45566666667777777777777766654333   555566666667777777777777666655432   222222110


Q ss_pred             --HHHHHHHHhhcCHHHHHHHHHHc
Q 044786          156 --GSLINFYGKFRCLEDADFVFSQL  178 (340)
Q Consensus       156 --~~l~~~~~~~~~~~~a~~~~~~~  178 (340)
                        ..-.-.+...+++..|...|-+.
T Consensus       210 lk~~~gl~~l~~r~f~~Aa~~f~e~  234 (429)
T 4b4t_R          210 YKTYYGIHCLAVRNFKEAAKLLVDS  234 (429)
T ss_dssp             HHHHHHHGGGGTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChHHHHHHHHHHH
Confidence              11111233456666666665553

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=86.05  E-value=5.9  Score=27.38  Aligned_cols=56  Identities=14%  Similarity=0.165  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAML  293 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li  293 (340)
                      ...-++.+....+-|++.+..+-+++|-+.+++..|.++|+.++.+  +...+|..++
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~l  129 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHH
Confidence            4455556666677888888888888888888888888888888763  3334455554

>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=85.97  E-value=14  Score=30.96  Aligned_cols=167  Identities=13%  Similarity=0.020  Sum_probs=97.9

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhc-CChhHHHHHHhhcC---cCCcccH----
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT---LLFLNRLLLMHVSC-GQLDTARQLFDEMP---LRDFNSW----   80 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~---~~~~~~li~~~~~~-~~~~~a~~~~~~~~---~~~~~~~----   80 (340)
                      +...+...|.+.|+.++..+++.......+.-|-   ......+++.+... +..+.-.++..+..   ...-.+|    
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456777788888888888888877654333332   34456777777664 33333333333222   1111223    


Q ss_pred             --HHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHc--CCCCchhHHH
Q 044786           81 --AVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKL--GSSRNISLTG  156 (340)
Q Consensus        81 --~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~  156 (340)
                        .-++..|...|++.+|.+++.++.+.=...+.-..-..++..-+..|...+++..+...+......  .+.+++.+..
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a  180 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQG  180 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHH
Confidence              247788888899999988888888752222111223346667777788888888888888766533  2223333322


Q ss_pred             H----HHHHHH-hhcCHHHHHHHHHHc
Q 044786          157 S----LINFYG-KFRCLEDADFVFSQL  178 (340)
Q Consensus       157 ~----l~~~~~-~~~~~~~a~~~~~~~  178 (340)
                      .    -.-.+. ..+++..|...|-+.
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            1    122344 567788777766553

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=84.30  E-value=9.5  Score=27.45  Aligned_cols=66  Identities=6%  Similarity=-0.050  Sum_probs=36.2

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhc-CCccccch--HHHHHHHHHHhhhccchhhHHHHHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKK-GHMLLVFP--AWIIVCVLKACVCTMNMELGKQVHGLLF  144 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~  144 (340)
                      .+-.-+..+...+.++.|+-+.+.+..... ..+.+.|.  ..++..+..++...+++..|...|++.+
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            344445566666777777666666544320 11001111  1255566677777777777777777654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=81.62  E-value=9.7  Score=26.33  Aligned_cols=32  Identities=9%  Similarity=0.184  Sum_probs=15.9

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC
Q 044786           42 IKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP   73 (340)
Q Consensus        42 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   73 (340)
                      +-|++.+..+.+.+|-|.+++..|.++|+.++
T Consensus        84 lVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           84 LVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             BCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            44455555555555555555555555554443

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.29  E-value=10  Score=32.33  Aligned_cols=95  Identities=3%  Similarity=-0.124  Sum_probs=69.8

Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHcC--CCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc-----CChhhHH---
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKLG--SSRNISLTGSLINFYGKFRCLEDADFVFSQLKR-----HNTVVWT---  187 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~---  187 (340)
                      .+...+...+.+.|+++.|.+.+.++....  ...-...+-.++..+...+++..+...+++...     ++....+   
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            356678899999999999999999998753  334456788899999999999999998888642     1222111   


Q ss_pred             -HHHHHHhccCchhHHHHHHHHHhhc
Q 044786          188 -AKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       188 -~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                       .-...+...+++.+|...|-+....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence             1122344678999999998887653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	340
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.8
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.22
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.22
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.21
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.19
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.13
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.06
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.01
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.0
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.96
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.91
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.77
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.74
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.64
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.6
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.44
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.44
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.41
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.4
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.38
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.38
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.36
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.36
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.21
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.19
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.1
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.01
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.96
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.95
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.93
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.93
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.87
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.86
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.85
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.8
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.8
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.78
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.78
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.7
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.69
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.62
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.57
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.57
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.33
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.3
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.29
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.29
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.14
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.96
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.49
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.65
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.14
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.76
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.68
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	90.59
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.94
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.34
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	84.98
d1ug3a1	193	Eukaryotic initiation factor eIF4G {Human (Homo sa	84.04
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	80.86

>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=99.87  E-value=1.4e-18  Score=146.14  Aligned_cols=312  Identities=10%  Similarity=0.027  Sum_probs=248.8

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHcccC
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~   92 (340)
                      +...+.+.|++++|.+.++.+.+.  .+-+...+..+..++.+.|++++|.+.|++..+  | +..+|..+...+.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcc
Confidence            445677889999999999999876  344677888888899999999999999988763  3 45578888889999999


Q ss_pred             hhHHHHHHHHHHHhhcCC--------------------------------------------------------------
Q 044786           93 YQECITLFAEMMKRKKGH--------------------------------------------------------------  110 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~--------------------------------------------------------------  110 (340)
                      +++|++.+....+.....                                                              
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            999999888877653100                                                              


Q ss_pred             ccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHH
Q 044786          111 MLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWT  187 (340)
Q Consensus       111 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~  187 (340)
                      ...+-+...+..+...+...|+++.|...++...+.... +...+..+...+...|++++|...++....   .+...+.
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  241 (388)
T d1w3ba_         163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHG  241 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHH
T ss_pred             ccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHH
Confidence            000112345566667777888999999999988887543 667888899999999999999999988753   3566788


Q ss_pred             HHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhc
Q 044786          188 AKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGK  266 (340)
Q Consensus       188 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  266 (340)
                      .+...+.+.|++++|+..|++..+.  .|+ ..++..+...+...|++.+ +...++..... .+.+...+..+...+.+
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~~~-~~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAE-AEDCYNTALRL-CPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHH-HHHHHHHHHHH-CTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHH-HHHHHHhhhcc-CCccchhhhHHHHHHHH
Confidence            8889999999999999999998874  454 5678888889999999977 77777766654 35677888999999999


Q ss_pred             cCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccc-hhHHHHHHHHhhhcCc
Q 044786          267 CRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQ-ESLINDLRIACSSISA  336 (340)
Q Consensus       267 ~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~t~~~ll~a~~~~g~  336 (340)
                      .|++++|.+.|++..+ .| +..+|..+...|.+.|++++|++.|++..+.  .|+ ...+..+-.++.+.||
T Consensus       318 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999876 34 6778999999999999999999999998754  554 5677777777777765

>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=99.80  E-value=1e-16  Score=134.60  Aligned_cols=282  Identities=8%  Similarity=-0.048  Sum_probs=232.1

Q ss_pred             CCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC------------
Q 044786            8 ITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR------------   75 (340)
Q Consensus         8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------------   75 (340)
                      -++..+..+...+.+.|++++|.+.|+...+.  .+-+..++..+..++.+.|++++|.+.+......            
T Consensus        31 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  108 (388)
T d1w3ba_          31 DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLA  108 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHhhhhcccccccccccccccccccccccccccc
Confidence            34677888889999999999999999999887  3446789999999999999999999988765411            


Q ss_pred             -----------------------------------------------------------CcccHHHHHHHHHcccChhHH
Q 044786           76 -----------------------------------------------------------DFNSWAVMIVGYVDVADYQEC   96 (340)
Q Consensus        76 -----------------------------------------------------------~~~~~~~li~~~~~~g~~~~a   96 (340)
                                                                                 +...+..+...+...|++++|
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  188 (388)
T d1w3ba_         109 AALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLA  188 (388)
T ss_dssp             HHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHH
Confidence                                                                       112344455667788999999


Q ss_pred             HHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHH
Q 044786           97 ITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFS  176 (340)
Q Consensus        97 ~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  176 (340)
                      ...+++..+..      +-+...+..+...+...|++++|...++...+.... +...+..+...+.+.|++++|...|+
T Consensus       189 ~~~~~~al~~~------p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  261 (388)
T d1w3ba_         189 IHHFEKAVTLD------PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYR  261 (388)
T ss_dssp             HHHHHHHHHHC------TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhC------cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999998874      445668889999999999999999999999887644 56778889999999999999999999


Q ss_pred             Hccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCcc
Q 044786          177 QLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESD  253 (340)
Q Consensus       177 ~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (340)
                      +..+   .+..+|..+...+...|++++|...++...... +.+...+..+...+...|++++ +...++...+.. +-+
T Consensus       262 ~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~al~~~-p~~  338 (388)
T d1w3ba_         262 RAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEE-AVRLYRKALEVF-PEF  338 (388)
T ss_dssp             HHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHH-HHHHHHHHTTSC-TTC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHH-HHHHHHHHHHhC-CCC
Confidence            8753   356789999999999999999999999987753 4456778888889999999977 777777665532 236


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCc
Q 044786          254 EYVQCGLVDMYGKCRLLRDAERVFELIVD-KK-NIASWNAMLVGYIRNGL  301 (340)
Q Consensus       254 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~  301 (340)
                      ..++..+...|.+.|++++|.+.|++... .| +...|..+...|.+.||
T Consensus       339 ~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         339 AAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            77888999999999999999999998876 35 67789999999988775

>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=99.57  E-value=1.3e-12  Score=106.75  Aligned_cols=119  Identities=11%  Similarity=0.012  Sum_probs=70.0

Q ss_pred             hccCchhHHHHHHHHHhhccc-CCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHH
Q 044786          194 CREGHFHQVFNDFKEMGRERI-KKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRD  272 (340)
Q Consensus       194 ~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  272 (340)
                      ...+.+.+|...|.+..+... .++...+..+...+...|++++ +...++...... +-+..+|..+...|.+.|++++
T Consensus       147 ~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         147 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDK-AVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhh-hhcccccccccc-cccccchhhhhhcccccccchh
Confidence            334555666666665554321 1233445555556666666655 555555444432 2245566666777777777777


Q ss_pred             HHHHHHHhhc-C-CcHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Q 044786          273 AERVFELIVD-K-KNIASWNAMLVGYIRNGLYVEATKFLYLMKA  314 (340)
Q Consensus       273 A~~~~~~~~~-~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  314 (340)
                      |.+.|++... . .+..+|..+..+|.+.|++++|++.|++..+
T Consensus       225 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         225 AVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777776654 2 3556667777777777777777777776544

>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=99.52  E-value=3.2e-12  Score=104.44  Aligned_cols=259  Identities=8%  Similarity=-0.020  Sum_probs=151.4

Q ss_pred             HHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccC
Q 044786           16 LIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~   92 (340)
                      ....+.+.|++++|++.|+.+.+.  -+-+..+|..+..++...|++++|...|++..+   .+...|..+...|...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccccccccccccccccccc
Confidence            344566788888888888888765  344567777888888888888888888877652   244567777778888888


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDAD  172 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (340)
                      +++|.+.+++.....       |+............                   ...+.......+..+...+.+.+|.
T Consensus       103 ~~~A~~~~~~~~~~~-------~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~a~  156 (323)
T d1fcha_         103 QRQACEILRDWLRYT-------PAYAHLVTPAEEGA-------------------GGAGLGPSKRILGSLLSDSLFLEVK  156 (323)
T ss_dssp             HHHHHHHHHHHHHTS-------TTTGGGCC----------------------------------CTTHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc-------cchHHHHHhhhhhh-------------------hhcccccchhhHHHHHHhhHHHHHH
Confidence            888888888877662       22110000000000                   0000000111122233344455555


Q ss_pred             HHHHHccc-----CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHH
Q 044786          173 FVFSQLKR-----HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIV  246 (340)
Q Consensus       173 ~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  246 (340)
                      +.|.+..+     .+...+..+...+...|++++|+..|++....  .|+ ...|..+...+...|++++ |...++...
T Consensus       157 ~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~-A~~~~~~al  233 (323)
T d1fcha_         157 ELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEE-AVAAYRRAL  233 (323)
T ss_dssp             HHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH-HHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchh-HHHHHHHHH
Confidence            55554431     13345556666666667777777777666553  233 4455566666667777655 555555554


Q ss_pred             HhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CC------------cHHHHHHHHHHHHHcCchHHHH
Q 044786          247 KIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVD-KK------------NIASWNAMLVGYIRNGLYVEAT  306 (340)
Q Consensus       247 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~------------~~~~~~~li~~~~~~~~~~~a~  306 (340)
                      +.. +-+..++..+..+|.+.|++++|.+.|++..+ .|            ....|..+-.++...++.+.+.
T Consensus       234 ~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         234 ELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            432 22456677788888888888888888887764 11            1234556666666666665443

>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=99.22  E-value=4e-09  Score=86.38  Aligned_cols=192  Identities=10%  Similarity=0.001  Sum_probs=91.8

Q ss_pred             HHHhhhccchhhHHHHHHHHHhhcCCCCC-----HHHHHHHHHHHHhcCChhHHHHHHhhcCc-----CC----cccHHH
Q 044786           17 IKECTFQKDSAGAFELLNHIRKRVNIKPT-----LLFLNRLLLMHVSCGQLDTARQLFDEMPL-----RD----FNSWAV   82 (340)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~m~~~~g~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~   82 (340)
                      ...+...|++++|.++++.....  .+.+     ...+..+..++...|++++|.+.|+....     ++    ...+..
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   96 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   96 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            34445666777777777666554  1111     23444555566666666666666665541     11    112444


Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCC--ccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC----CchhHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGH--MLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS----RNISLTG  156 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~  156 (340)
                      +...+...|++..+...+.+........  .........+..+...+...|+++.+...+.........    .....+.
T Consensus        97 ~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  176 (366)
T d1hz4a_          97 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  176 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHH
Confidence            4455566666666666666666542100  000111223444445555556666666665555443221    1122333


Q ss_pred             HHHHHHHhhcCHHHHHHHHHHccc-------C---ChhhHHHHHHHHhccCchhHHHHHHHHHh
Q 044786          157 SLINFYGKFRCLEDADFVFSQLKR-------H---NTVVWTAKIVNNCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~-------~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~  210 (340)
                      .....+...++...+...+.+...       .   ....+......+...|++++|...+++..
T Consensus       177 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  240 (366)
T d1hz4a_         177 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTA  240 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            344445555555555544443321       0   11223344444555555555555555443

>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=99.22  E-value=9e-09  Score=84.18  Aligned_cols=287  Identities=9%  Similarity=-0.005  Sum_probs=201.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCc--CCc------ccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPL--RDF------NSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWI  119 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~  119 (340)
                      .....-..+...|++++|++++++...  |+.      ..+..+...+...|++++|++.|++........+........
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            333445667899999999999988652  221      256677888999999999999999987653222334788888


Q ss_pred             HHHHHHHhhhccchhhHHHHHHHHHH----cCCCC---chhHHHHHHHHHHhhcCHHHHHHHHHHcccC--------Chh
Q 044786          120 IVCVLKACVCTMNMELGKQVHGLLFK----LGSSR---NISLTGSLINFYGKFRCLEDADFVFSQLKRH--------NTV  184 (340)
Q Consensus       120 ~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~  184 (340)
                      +..+...+...|++..+...+.....    .+...   ....+..+...+...|+++.+...+......        ...
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            99999999999999999999887653    22222   2235566778899999999999998876521        234


Q ss_pred             hHHHHHHHHhccCchhHHHHHHHHHhhc----ccCCC--hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCC---ccHH
Q 044786          185 VWTAKIVNNCREGHFHQVFNDFKEMGRE----RIKKN--SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLE---SDEY  255 (340)
Q Consensus       185 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~  255 (340)
                      .+......+...++..++...+.+....    +..+.  ...+......+...|+.++ +...+.........   ....
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~  252 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAA-AANWLRHTAKPEFANNHFLQG  252 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHH-HHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHH-HHHHHHHHHHhccccchHHHH
Confidence            5566677788889999999888776542    11111  2234555666778888866 66665554433222   2345


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhc-------CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc----CCcc----
Q 044786          256 VQCGLVDMYGKCRLLRDAERVFELIVD-------KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKAS----GIQI----  319 (340)
Q Consensus       256 ~~~~li~~~~~~~~~~~A~~~~~~~~~-------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~----  319 (340)
                      .+..+...+...|++++|...++....       .| ....+..+...|.+.|++++|.+.+++....    |...    
T Consensus       253 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~  332 (366)
T d1hz4a_         253 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVI  332 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHH
Confidence            566788899999999999999988763       12 3457788889999999999999999886443    4321    


Q ss_pred             chhHHHHHHHHhhhcC
Q 044786          320 QESLINDLRIACSSIS  335 (340)
Q Consensus       320 ~~~t~~~ll~a~~~~g  335 (340)
                      ....+..++......+
T Consensus       333 ~~~~~~~~~~~l~~~~  348 (366)
T d1hz4a_         333 EGEAMAQQLRQLIQLN  348 (366)
T ss_dssp             THHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcC
Confidence            2234555555554444

>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=6.7e-09  Score=83.93  Aligned_cols=157  Identities=10%  Similarity=0.042  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHccc-ChhHHHHHHHHHHHhhcCCccccchHHHHHHH
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDVA-DYQECITLFAEMMKRKKGHMLLVFPAWIIVCV  123 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~l  123 (340)
                      .++.+-..+.+.+..++|+++++.+.+  | +..+|+.....+...| ++++|+..+++..+..      +-+..+|...
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~------p~~~~a~~~~  118 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ------PKNYQVWHHR  118 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC------TTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH------HhhhhHHHHH
Confidence            344444444455555555555555442  2 2223444444444433 3455555555555542      3334455555


Q ss_pred             HHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHHHhccCc--
Q 044786          124 LKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVNNCREGH--  198 (340)
Q Consensus       124 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~--  198 (340)
                      ...+.+.|++++|...++.+.+.... +...|..+...+.+.|++++|.+.++...+.   +...|+.+...+.+.+.  
T Consensus       119 ~~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         119 RVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             hHHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccc
Confidence            55555555555555555555554322 4445555555555555555555555554421   33344444433333332  


Q ss_pred             ----hhHHHHHHHHHhh
Q 044786          199 ----FHQVFNDFKEMGR  211 (340)
Q Consensus       199 ----~~~a~~~~~~m~~  211 (340)
                          +++|+..+.+..+
T Consensus       198 ~~~~~~~ai~~~~~al~  214 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIK  214 (315)
T ss_dssp             SHHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHH
Confidence                4556666655554

>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=99.19  E-value=9.2e-09  Score=82.90  Aligned_cols=213  Identities=9%  Similarity=-0.012  Sum_probs=157.5

Q ss_pred             hHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhh--------------hccchhhHHHHHHHHHHcCCCCchhHHHHHH
Q 044786           94 QECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACV--------------CTMNMELGKQVHGLLFKLGSSRNISLTGSLI  159 (340)
Q Consensus        94 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~--------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  159 (340)
                      +.+..+|++++..-      +.+...|...+.-+.              ..+..+++..+|+..++...+.+...+...+
T Consensus        33 ~Rv~~vyerAl~~~------~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya  106 (308)
T d2onda1          33 KRVMFAYEQCLLVL------GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYA  106 (308)
T ss_dssp             HHHHHHHHHHHHHH------TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            45666777777663      334444444443332              2235688889999988765555777888888


Q ss_pred             HHHHhhcCHHHHHHHHHHcccC---C-hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHH-hcccCCch
Q 044786          160 NFYGKFRCLEDADFVFSQLKRH---N-TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLK-ACGGVDDD  234 (340)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~---~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~-~~~~~~~~  234 (340)
                      ..+.+.|+++.|..+|+.+.+.   + ...|...+..+.+.|+.++|.++|++..+.+.. +...|..... -+...|+.
T Consensus       107 ~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~  185 (308)
T d2onda1         107 DYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCH
T ss_pred             HHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCH
Confidence            9999999999999999997643   2 346889999999999999999999999875422 2333332222 23345666


Q ss_pred             hchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC----C--cHHHHHHHHHHHHHcCchHHHHHH
Q 044786          235 GNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK----K--NIASWNAMLVGYIRNGLYVEATKF  308 (340)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~--~~~~~~~li~~~~~~~~~~~a~~~  308 (340)
                      +. +..+++...+. .+.++..|...++.+.+.|+++.|..+|++....    |  ....|...+.--...|+.+.+.++
T Consensus       186 ~~-a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~  263 (308)
T d2onda1         186 SV-AFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKV  263 (308)
T ss_dssp             HH-HHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HH-HHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            44 88888888775 4557889999999999999999999999997652    2  245799888888899999999999


Q ss_pred             HHHHHHc
Q 044786          309 LYLMKAS  315 (340)
Q Consensus       309 ~~~m~~~  315 (340)
                      ++++.+.
T Consensus       264 ~~r~~~~  270 (308)
T d2onda1         264 EKRRFTA  270 (308)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998654

>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=99.13  E-value=1.7e-08  Score=81.54  Aligned_cols=192  Identities=11%  Similarity=-0.006  Sum_probs=153.0

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHhhcC---cCCcccHHHHHHH
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCG-QLDTARQLFDEMP---LRDFNSWAVMIVG   86 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~---~~~~~~~~~li~~   86 (340)
                      ..|+.+-..+.+.+.+++|+++++.+.+.  -+-+...|+....++...| ++++|++.++...   ..+..+|+.+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHH
Confidence            45566666777889999999999999987  3446778888888888876 5899999999876   3466689999999


Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      +.+.|++++|+..++++.+..      +-+...|..+...+.+.|++++|.+.++.+.+..+. +...|+.+...+.+.+
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d------p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~  194 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD------AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTT  194 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHhhccHHHHHHHHhhhhhhh------hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHcc
Confidence            999999999999999999985      567889999999999999999999999999998755 5667776666665555


Q ss_pred             C------HHHHHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          167 C------LEDADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       167 ~------~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      .      +++|.+.+....+  | +...|+.+...+.. ...+++...++...+.
T Consensus       195 ~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         195 GYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             ccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence            4      6788888877653  3 66777777665554 4457788888777664

>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=99.06  E-value=6.8e-09  Score=81.31  Aligned_cols=191  Identities=9%  Similarity=-0.014  Sum_probs=100.3

Q ss_pred             HHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHHHh
Q 044786          118 WIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVNNC  194 (340)
Q Consensus       118 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~  194 (340)
                      .+|..+...+.+.|++++|.+.|+...+..+. ++.+|..+..+|.+.|++++|.+.|++..+  | +..++..+..+|.
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHH
Confidence            35666666666777777777777766665533 556666677777777777777777776642  2 3455666667777


Q ss_pred             ccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCC----
Q 044786          195 REGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRL----  269 (340)
Q Consensus       195 ~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----  269 (340)
                      ..|++++|...|++..+..  |+ ......+..++.+.+.. +....+.......  .++...++ ++..+.....    
T Consensus       117 ~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEK-QAKEVLKQHFEKS--DKEQWGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHH-HHHHHHHHHHHHS--CCCSTHHH-HHHHHTTSSCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhH-HHHHHHHHHhhcc--chhhhhhh-HHHHHHHHHHHHHH
Confidence            7777777777777766542  32 22222222222222222 1122333332222  12111121 2222222111    


Q ss_pred             HHHHHHHHHHhhc-CC-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHc
Q 044786          270 LRDAERVFELIVD-KK-NIASWNAMLVGYIRNGLYVEATKFLYLMKAS  315 (340)
Q Consensus       270 ~~~A~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  315 (340)
                      .+.+...+..... .| ...+|..+...|...|++++|.+.|++....
T Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         191 MERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            2222222111111 12 2345666777888888888888888887654

>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=99.01  E-value=1.5e-07  Score=73.30  Aligned_cols=92  Identities=10%  Similarity=-0.146  Sum_probs=47.7

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHc
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVD   89 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~   89 (340)
                      |..+-..+.+.|++++|.+.|+...+.  -+-++.+|+.+..++.+.|++++|++.|++..+  | +..+|..+...+..
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHH
Confidence            334444455555555555555555544  223445555555555555555555555555441  1 23345555555555


Q ss_pred             ccChhHHHHHHHHHHHh
Q 044786           90 VADYQECITLFAEMMKR  106 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~  106 (340)
                      .|++++|.+.|++..+.
T Consensus       118 ~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh
Confidence            55555555555555554

>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=99.00  E-value=2.5e-08  Score=80.26  Aligned_cols=180  Identities=9%  Similarity=0.071  Sum_probs=128.9

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcC---Cc-ccHHHHHHHHHcccChhHHHHHH
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLR---DF-NSWAVMIVGYVDVADYQECITLF  100 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~-~~~~~li~~~~~~g~~~~a~~~~  100 (340)
                      ..+.|..+|+...+. ..+.+...|...+....+.|+++.|..+|+.+...   +. .+|...+....+.|+.+.|.++|
T Consensus        79 ~~~~a~~i~~ral~~-~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHH-cCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            456778888888765 44556667777788888888888888888886532   22 25777888888888888888888


Q ss_pred             HHHHHhhcCCccccchHHHHHHHHHH-hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          101 AEMMKRKKGHMLLVFPAWIIVCVLKA-CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       101 ~~m~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      .+..+..      +.+...|...... +...|+.+.|..+|+.+.+... .+...+...++.+.+.|+++.|..+|++..
T Consensus       158 ~~al~~~------~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p-~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai  230 (308)
T d2onda1         158 KKAREDA------RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVL  230 (308)
T ss_dssp             HHHHTST------TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHhC------CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            8887663      2333334333322 3345778888888888887643 356778888888888888888888888864


Q ss_pred             cC-------ChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          180 RH-------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       180 ~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                      +.       ....|...+.--...|+.+.+.++++++.+.
T Consensus       231 ~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         231 TSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            32       2346777777777788888888888887653

>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=98.96  E-value=1.1e-08  Score=83.38  Aligned_cols=257  Identities=6%  Similarity=-0.110  Sum_probs=165.6

Q ss_pred             HHHHHHhcCChhHHHHHHhhcCc--CCcc-cHHHHH---HH-------HHcccChhHHHHHHHHHHHhhcCCccccchHH
Q 044786           52 LLLMHVSCGQLDTARQLFDEMPL--RDFN-SWAVMI---VG-------YVDVADYQECITLFAEMMKRKKGHMLLVFPAW  118 (340)
Q Consensus        52 li~~~~~~~~~~~a~~~~~~~~~--~~~~-~~~~li---~~-------~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~  118 (340)
                      ++....+.+..++|+++++...+  |+.. .|+..-   ..       +...|++++|+.+++...+..      +-+..
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~------pk~~~  108 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN------PKSYG  108 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC------TTCHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC------CCcHH
Confidence            33333333444677777777663  3222 333222   22       233456788999999988873      34555


Q ss_pred             HHHHHHHHhhhcc--chhhHHHHHHHHHHcCCCCchhH-HHHHHHHHHhhcCHHHHHHHHHHcccC---ChhhHHHHHHH
Q 044786          119 IIVCVLKACVCTM--NMELGKQVHGLLFKLGSSRNISL-TGSLINFYGKFRCLEDADFVFSQLKRH---NTVVWTAKIVN  192 (340)
Q Consensus       119 ~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~  192 (340)
                      .|..+..++...+  +++++...+..+.+.... +... +......+...+.+++|...++...+.   +...|+.+...
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~  187 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            6666665655554  578888888888887544 3333 344556777889999999999987654   56778888888


Q ss_pred             HhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHH
Q 044786          193 NCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRD  272 (340)
Q Consensus       193 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  272 (340)
                      +.+.|++++|...++...+.  .|+..   .....+...+..++ +...+...... -+++...+..+...+...++.++
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~-a~~~~~~~l~~-~~~~~~~~~~l~~~~~~~~~~~~  260 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQ-SAWFYHRWLLG-RAEPLFRCELSVEKSTVLQSELE  260 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCS-HHHHHHHHHHS-CCCCSSSCCCCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhH-HHHHHHHHHHh-CcchhhHHHHHHHHHHHHhhHHH
Confidence            99999888886666554432  22221   12222333344445 33333333332 24455566677777888899999


Q ss_pred             HHHHHHHhhcC-C-cHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCccchhHH
Q 044786          273 AERVFELIVDK-K-NIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQIQESLI  324 (340)
Q Consensus       273 A~~~~~~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~  324 (340)
                      |...+.+.... | +..+|..+...|.+.|++++|++.|++..+.  .|+..-|
T Consensus       261 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y  312 (334)
T d1dcea1         261 SCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAY  312 (334)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHH
T ss_pred             HHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHH
Confidence            99999887753 3 5667888888999999999999999998775  5654434

>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=98.91  E-value=9.3e-09  Score=83.90  Aligned_cols=259  Identities=8%  Similarity=-0.031  Sum_probs=175.3

Q ss_pred             cchhhHHHHHHHHHhhcCCCCC-HHHHHHHH---HH-------HHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHc
Q 044786           24 KDSAGAFELLNHIRKRVNIKPT-LLFLNRLL---LM-------HVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVD   89 (340)
Q Consensus        24 ~~~~~a~~~~~~m~~~~g~~~~-~~~~~~li---~~-------~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~   89 (340)
                      ...++|+++++.....   .|+ ...|+..-   ..       +...|++++|+.+++...+   .+...|..+..++..
T Consensus        43 ~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          43 ELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             CCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHH
Confidence            3458999999999876   454 44443322   22       2233557889999988763   355567777767666


Q ss_pred             cc--ChhHHHHHHHHHHHhhcCCccccchHHHHH-HHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           90 VA--DYQECITLFAEMMKRKKGHMLLVFPAWIIV-CVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        90 ~g--~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      .+  ++++|...+.++.+..      +++...+. .....+...+.++.|...++.+.+..+. +...|+.+...+.+.|
T Consensus       120 ~~~~~~~~a~~~~~~al~~~------~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~  192 (334)
T d1dcea1         120 LPEPNWARELELCARFLEAD------ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLH  192 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHS
T ss_pred             hccccHHHHHHHHHHHHhhC------chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhc
Confidence            65  5889999999999884      44555554 4446677789999999999998888754 7788889999999999


Q ss_pred             CHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHH
Q 044786          167 CLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIV  246 (340)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  246 (340)
                      ++++|...++...+-..... .....+...+..+++...+....... +++...+..+...+...++..+ +...+....
T Consensus       193 ~~~~A~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~  269 (334)
T d1dcea1         193 PQPDSGPQGRLPENVLLKEL-ELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELE-SCKELQELE  269 (334)
T ss_dssp             CCCCSSSCCSSCHHHHHHHH-HHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHH-HHHHHHHHC
T ss_pred             CHHHHHHHHHHhHHhHHHHH-HHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHH-HHHHHHHHH
Confidence            99888766655443322222 23344556677888888888776643 2333444455555556666655 333333333


Q ss_pred             HhCCCc-cHHHHHHHHHHHhccCCHHHHHHHHHHhhc-CCc-HHHHHHHHHHHH
Q 044786          247 KIGLES-DEYVQCGLVDMYGKCRLLRDAERVFELIVD-KKN-IASWNAMLVGYI  297 (340)
Q Consensus       247 ~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~-~~~~~~li~~~~  297 (340)
                      .  ..| +..++..+...|.+.|++++|.+.++.... .|+ ..-|+.|...+.
T Consensus       270 ~--~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         270 P--ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             T--TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             h--hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHh
Confidence            2  233 567788899999999999999999999876 464 445666655554

>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=98.77  E-value=3.2e-07  Score=68.05  Aligned_cols=88  Identities=10%  Similarity=-0.064  Sum_probs=72.6

Q ss_pred             HHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc
Q 044786           53 LLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN  132 (340)
Q Consensus        53 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (340)
                      ...+...|+++.|++.|+.+..++..+|..+..+|...|++++|++.|++.++.+      +-+...|..+..++.+.|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld------p~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD------KHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh------hhhhhhHHHHHHHHHhhcc
Confidence            3445778889999999988888888888888888999999999999999988885      5566788888888888888


Q ss_pred             hhhHHHHHHHHHHc
Q 044786          133 MELGKQVHGLLFKL  146 (340)
Q Consensus       133 ~~~a~~~~~~~~~~  146 (340)
                      +++|.+.|+.....
T Consensus        86 ~~~A~~~~~kAl~~   99 (192)
T d1hh8a_          86 YDLAIKDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh
Confidence            88888888877653

>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=98.74  E-value=2.8e-07  Score=73.27  Aligned_cols=200  Identities=9%  Similarity=-0.080  Sum_probs=125.1

Q ss_pred             chhHHHHHHhhhccchhhHHHHHHHHHhhc---CCCC-CHHHHHHHHHHHHhcCChhHHHHHHhhcCc----C-C----c
Q 044786           11 DMYTCLIKECTFQKDSAGAFELLNHIRKRV---NIKP-TLLFLNRLLLMHVSCGQLDTARQLFDEMPL----R-D----F   77 (340)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~-~----~   77 (340)
                      ..|......|...|++++|.+.|.+.....   +-++ -..+|..+..+|.+.|++++|.+.++....    . +    .
T Consensus        38 ~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  117 (290)
T d1qqea_          38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (290)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHH
Confidence            357777788888888999998888877641   1111 235778888888889999988888886541    1 1    2


Q ss_pred             ccHHHHHHHHH-cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCch----
Q 044786           78 NSWAVMIVGYV-DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNI----  152 (340)
Q Consensus        78 ~~~~~li~~~~-~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  152 (340)
                      .++..+...|. ..|++++|++.+++..+.........-...++..+...+...|++++|...|+.+.........    
T Consensus       118 ~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~  197 (290)
T d1qqea_         118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (290)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh
Confidence            24555666664 4588888888888876542111000112346777888888888888888888887765432211    


Q ss_pred             --hHHHHHHHHHHhhcCHHHHHHHHHHcccCCh--------hhHHHHHHHHhc--cCchhHHHHHHHHHh
Q 044786          153 --SLTGSLINFYGKFRCLEDADFVFSQLKRHNT--------VVWTAKIVNNCR--EGHFHQVFNDFKEMG  210 (340)
Q Consensus       153 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~li~~~~~--~~~~~~a~~~~~~m~  210 (340)
                        ..+...+..+...|+++.|...+++..+-+.        .....++.++-.  .+.+++|+..|+++.
T Consensus       198 ~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence              1233444556677888888888888765432        223445555544  234556666555443

>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=98.64  E-value=1.1e-06  Score=69.83  Aligned_cols=170  Identities=11%  Similarity=0.007  Sum_probs=102.7

Q ss_pred             hHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           28 GAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        28 ~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      ++.++++...+. + +|....+..+.  -...+++++|.++|.           -....|...+++++|.+.|.+..+..
T Consensus         3 ~~~~~l~~aek~-~-~~~~~~~~~~~--~~~~~~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~   67 (290)
T d1qqea_           3 DPVELLKRAEKK-G-VPSSGFMKLFS--GSDSYKFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQ   67 (290)
T ss_dssp             CHHHHHHHHHHH-S-SCCCTHHHHHS--CCSHHHHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHh-c-CcchhHHHHhc--CCccccHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            456677776665 2 33332222111  011234677776644           44667888889999999988887652


Q ss_pred             cCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCC-----CchhHHHHHHHHHHh-hcCHHHHHHHHHHcccC
Q 044786          108 KGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSS-----RNISLTGSLINFYGK-FRCLEDADFVFSQLKRH  181 (340)
Q Consensus       108 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~  181 (340)
                      ........-..+|..+..+|.+.|++++|.+.++...+....     ....++..+...|.. .|++++|.+.|++..+-
T Consensus        68 ~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l  147 (290)
T d1qqea_          68 KKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEW  147 (290)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHH
Confidence            111111223457888888888888888888888766543211     113345555555643 57888888777765321


Q ss_pred             ---------ChhhHHHHHHHHhccCchhHHHHHHHHHhhc
Q 044786          182 ---------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRE  212 (340)
Q Consensus       182 ---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  212 (340)
                               -..++..+...+...|++++|+..|++....
T Consensus       148 ~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         148 YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence                     1234666777777888888888887776553

>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=98.60  E-value=9.5e-07  Score=65.39  Aligned_cols=133  Identities=8%  Similarity=-0.067  Sum_probs=105.4

Q ss_pred             HHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 044786           84 IVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYG  163 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  163 (340)
                      ...+...|+++.|++.|+++   .      +|+..+|..+...+...|++++|.+.|++.++.... +...|..+..+|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i---~------~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~   81 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV---Q------DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS---S------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhc---C------CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHH
Confidence            44567889999999999764   1      567788999999999999999999999999998754 6778999999999


Q ss_pred             hhcCHHHHHHHHHHccc---C----------------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHH
Q 044786          164 KFRCLEDADFVFSQLKR---H----------------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSV  224 (340)
Q Consensus       164 ~~~~~~~a~~~~~~~~~---~----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  224 (340)
                      +.|++++|.+.|++...   .                ...++..+..++.+.|++++|.+.+.........|........
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~A  161 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKA  161 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHH
Confidence            99999999999988542   1                1244567788899999999999999988775544444444333


Q ss_pred             HH
Q 044786          225 LK  226 (340)
Q Consensus       225 l~  226 (340)
                      +.
T Consensus       162 l~  163 (192)
T d1hh8a_         162 ME  163 (192)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=98.44  E-value=5.4e-07  Score=67.17  Aligned_cols=98  Identities=8%  Similarity=-0.028  Sum_probs=80.8

Q ss_pred             CCCcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc--C-CcccHHHH
Q 044786            7 PITTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL--R-DFNSWAVM   83 (340)
Q Consensus         7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l   83 (340)
                      .|+...+...-..+.+.|++++|++.|+.....  -+.+...|+.+..+|.+.|++++|+..|+...+  | +..+|..+
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~l   78 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   78 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHH
Confidence            367777788888888999999999999988877  355778888888899999999999999988874  3 44568888


Q ss_pred             HHHHHcccChhHHHHHHHHHHHh
Q 044786           84 IVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        84 i~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ..+|...|++++|+..|++..+.
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh
Confidence            88899999999999999888765

>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=98.44  E-value=4.1e-06  Score=59.78  Aligned_cols=85  Identities=5%  Similarity=-0.058  Sum_probs=36.5

Q ss_pred             HHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc
Q 044786           56 HVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN  132 (340)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  132 (340)
                      |.+.|++++|...|++..   ..+...|..+...|...|++++|++.|++.++..      +-+..+|..+..++...|+
T Consensus        20 ~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~------p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD------KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc------ccchHHHHHHHHHHHHcCC
Confidence            334444444444444433   1122334444444444444444444444444442      2223344444444444444


Q ss_pred             hhhHHHHHHHHHHc
Q 044786          133 MELGKQVHGLLFKL  146 (340)
Q Consensus       133 ~~~a~~~~~~~~~~  146 (340)
                      +++|...++...+.
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            44444444444443

>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=98.41  E-value=4.6e-06  Score=56.03  Aligned_cols=85  Identities=8%  Similarity=-0.030  Sum_probs=36.2

Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR  166 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  166 (340)
                      +.+.|++++|+..|++.++..      +-+...|..+..++...|++++|...+....+.+.. +...|..+..++...|
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLD------PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHcCCHHHHHHHHHHHHhcC------CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHcc
Confidence            344444444444444444442      233334444444444444444444444444444322 3333444444444444


Q ss_pred             CHHHHHHHHHHc
Q 044786          167 CLEDADFVFSQL  178 (340)
Q Consensus       167 ~~~~a~~~~~~~  178 (340)
                      ++++|...|+..
T Consensus        86 ~~~~A~~~~~~a   97 (117)
T d1elwa_          86 RFEEAKRTYEEG   97 (117)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            444444444433

>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=98.40  E-value=0.00019  Score=55.49  Aligned_cols=79  Identities=9%  Similarity=-0.069  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhc----cCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGK----CRLLRDAERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFL  309 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~  309 (340)
                      +..+++...+.|   +......|-..|..    ..+++.|...|+...+..++..+..|...|.+    .++.++|.++|
T Consensus       165 ~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~  241 (265)
T d1ouva_         165 ALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENF  241 (265)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHH
T ss_pred             chhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHH
Confidence            333444444433   33333344444443    56899999999998877788888888777765    45899999999


Q ss_pred             HHHHHcCCcc
Q 044786          310 YLMKASGIQI  319 (340)
Q Consensus       310 ~~m~~~g~~~  319 (340)
                      ++-.+.|-.+
T Consensus       242 ~kAa~~g~~~  251 (265)
T d1ouva_         242 KKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHTCHH
T ss_pred             HHHHHCcCHH
Confidence            9999988665

>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=98.38  E-value=2.3e-06  Score=57.58  Aligned_cols=87  Identities=8%  Similarity=-0.044  Sum_probs=41.7

Q ss_pred             HHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHcccChh
Q 044786           18 KECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVDVADYQ   94 (340)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~   94 (340)
                      +.+.+.|++++|+..|+...+.  -+-+...|..+..+|.+.|++++|++.++...   ..+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            3344455555555555555544  23344445555555555555555555554443   223334444445555555555


Q ss_pred             HHHHHHHHHHHh
Q 044786           95 ECITLFAEMMKR  106 (340)
Q Consensus        95 ~a~~~~~~m~~~  106 (340)
                      +|+..|++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            555555555444

>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=98.38  E-value=5.7e-06  Score=59.00  Aligned_cols=92  Identities=7%  Similarity=0.035  Sum_probs=81.3

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcC---cCCcccHHHHHHHHHc
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMP---LRDFNSWAVMIVGYVD   89 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~   89 (340)
                      +..--+.+.+.|++++|...|+...+.  -+-+...|..+..+|...|++++|++.|+...   ..+..+|..+..++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHH
Confidence            445556788999999999999999988  45678899999999999999999999999886   3355689999999999


Q ss_pred             ccChhHHHHHHHHHHHh
Q 044786           90 VADYQECITLFAEMMKR  106 (340)
Q Consensus        90 ~g~~~~a~~~~~~m~~~  106 (340)
                      .|++++|...+++....
T Consensus        91 ~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          91 LGKFRAALRDYETVVKV  107 (159)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHc
Confidence            99999999999999988

>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=98.36  E-value=2e-06  Score=63.99  Aligned_cols=94  Identities=6%  Similarity=-0.148  Sum_probs=44.9

Q ss_pred             hHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHccc--C-ChhhHHHHHHH
Q 044786          116 PAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKR--H-NTVVWTAKIVN  192 (340)
Q Consensus       116 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~  192 (340)
                      +...+......+.+.|++++|...|+..++..+. +...|..+..+|.+.|++++|...|+...+  | +..+|..+..+
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            3333444444444444555555554444444322 344444455555555555555555555432  1 33345555555


Q ss_pred             HhccCchhHHHHHHHHHh
Q 044786          193 NCREGHFHQVFNDFKEMG  210 (340)
Q Consensus       193 ~~~~~~~~~a~~~~~~m~  210 (340)
                      |...|++++|+..|++..
T Consensus        82 ~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            555555555555555543

>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=98.36  E-value=3.5e-06  Score=56.17  Aligned_cols=90  Identities=9%  Similarity=-0.075  Sum_probs=64.6

Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHH
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINF  161 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  161 (340)
                      .+...+.+.|++++|+..|++.....      +-+...|..+..++.+.|++++|...++...+..+. +...+..+...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~------p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~   93 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE------PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVS   93 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc------cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHH
Confidence            34556677788888888888877773      335667777777777778888888877777776543 56667777777


Q ss_pred             HHhhcCHHHHHHHHHHc
Q 044786          162 YGKFRCLEDADFVFSQL  178 (340)
Q Consensus       162 ~~~~~~~~~a~~~~~~~  178 (340)
                      |...|++++|.+.+++.
T Consensus        94 y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          94 HTNEHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            77777777777777653

>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=98.21  E-value=2.1e-06  Score=58.08  Aligned_cols=88  Identities=13%  Similarity=0.005  Sum_probs=42.7

Q ss_pred             HHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhc---CHHHHHHHHHHcccCC-----hhhHHHHHHHHh
Q 044786          123 VLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFR---CLEDADFVFSQLKRHN-----TVVWTAKIVNNC  194 (340)
Q Consensus       123 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-----~~~~~~li~~~~  194 (340)
                      +++.+...+++++|.+.|+...+.+.. +..++..+..++.+.+   ++++|..+|+++...+     ..+|..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            344444444555555555544444422 4444444444444432   2334555555544321     123445555666


Q ss_pred             ccCchhHHHHHHHHHhh
Q 044786          195 REGHFHQVFNDFKEMGR  211 (340)
Q Consensus       195 ~~~~~~~a~~~~~~m~~  211 (340)
                      +.|++++|+..|++..+
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            66666666666666655

>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=98.19  E-value=5.9e-06  Score=54.98  Aligned_cols=84  Identities=8%  Similarity=-0.018  Sum_probs=46.0

Q ss_pred             HHHHhcCChhHHHHHHhhcCc--C-CcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhc
Q 044786           54 LMHVSCGQLDTARQLFDEMPL--R-DFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCT  130 (340)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~  130 (340)
                      ..+.+.|++++|...|++...  | +..+|..+..++.+.|++++|+..|++..+..      +.+...+..+...+...
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~------p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD------PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccc------cccccchHHHHHHHHHC
Confidence            344555555555555555441  2 33345555555566666666666666655552      33445555566666666


Q ss_pred             cchhhHHHHHHHH
Q 044786          131 MNMELGKQVHGLL  143 (340)
Q Consensus       131 ~~~~~a~~~~~~~  143 (340)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            6666666655543

>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=98.10  E-value=3.7e-05  Score=51.73  Aligned_cols=91  Identities=9%  Similarity=0.062  Sum_probs=69.0

Q ss_pred             HHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC---hhHHHHHHhhcCcCCc-----ccHHHHHH
Q 044786           14 TCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQ---LDTARQLFDEMPLRDF-----NSWAVMIV   85 (340)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~-----~~~~~li~   85 (340)
                      ..+++.+...+++++|.+.|+.....  -+.+..++..+..++.+.++   +++|+++|++....+.     .+|..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            45777888888899999999888876  35567787788888876554   4568888888765332     24666778


Q ss_pred             HHHcccChhHHHHHHHHHHHh
Q 044786           86 GYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        86 ~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      +|.+.|++++|++.|++.++.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            888888888888888888887

>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=98.01  E-value=5.4e-05  Score=54.36  Aligned_cols=76  Identities=11%  Similarity=0.041  Sum_probs=51.6

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHH
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSL  158 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  158 (340)
                      +|+.+..+|.+.|++++|+..++..+...      +.+...+..+..++...|++++|...|+...+..+. +......+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~------p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l  136 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc------ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            45666777777888888888888777773      346667777777777888888888888777776532 44444333


Q ss_pred             HHH
Q 044786          159 INF  161 (340)
Q Consensus       159 ~~~  161 (340)
                      -..
T Consensus       137 ~~~  139 (170)
T d1p5qa1         137 AVC  139 (170)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=97.96  E-value=0.00011  Score=52.61  Aligned_cols=95  Identities=9%  Similarity=-0.012  Sum_probs=77.2

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCC-------------HHHHHHHHHHHHhcCChhHHHHHHhhcC--c-CC
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPT-------------LLFLNRLLLMHVSCGQLDTARQLFDEMP--L-RD   76 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~-------------~~~~~~li~~~~~~~~~~~a~~~~~~~~--~-~~   76 (340)
                      +...-..+.+.|++++|++.|+.........+.             ..+|+.+..+|.+.|++++|++.++...  . .+
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~   95 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNN   95 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccc
Confidence            344556788899999999999998866222111             3567778888999999999999999877  3 36


Q ss_pred             cccHHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           77 FNSWAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        77 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      +.+|..+..+|...|++++|+..|++..+..
T Consensus        96 ~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          96 EKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            6688889999999999999999999999883

>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=97.95  E-value=3.7e-05  Score=52.35  Aligned_cols=56  Identities=4%  Similarity=-0.057  Sum_probs=26.5

Q ss_pred             HHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH
Q 044786           83 MIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF  144 (340)
Q Consensus        83 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  144 (340)
                      +...+.+.|++++|++.|++.++.+      +.+...+..+..++.+.|++++|.+.++.++
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD------PTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC------cccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            3344445555555555555555442      2233444444444444444444444444443

>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=97.93  E-value=4.7e-05  Score=55.12  Aligned_cols=120  Identities=6%  Similarity=-0.067  Sum_probs=84.3

Q ss_pred             HHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccChhHHH
Q 044786           18 KECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVADYQECI   97 (340)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~   97 (340)
                      ......|++++|.+.|......   .+...        +......+.+...-..+.......+..+...+.+.|++++|+
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l---~rG~~--------l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al   87 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALRE---WRGPV--------LDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVI   87 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT---CCSST--------TGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhh---Ccccc--------cccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHH
Confidence            4566778888888888888764   11110        001111112222222222233456778889999999999999


Q ss_pred             HHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHH-----HcCCCCchhH
Q 044786           98 TLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLF-----KLGSSRNISL  154 (340)
Q Consensus        98 ~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  154 (340)
                      ..+++.....      +-+...|..++.++.+.|+..+|.+.|++..     +.|+.|+..+
T Consensus        88 ~~~~~al~~~------P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          88 AELEALTFEH------PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHS------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHhC------CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999885      6678899999999999999999999998874     3689988755

>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=97.93  E-value=0.00026  Score=51.07  Aligned_cols=121  Identities=14%  Similarity=0.113  Sum_probs=84.3

Q ss_pred             HHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccC
Q 044786          189 KIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCR  268 (340)
Q Consensus       189 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  268 (340)
                      ........|++++|...|.+....  -+...     +..+.. +.+   +...-..+..    .....+..+...+.+.|
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l--~rG~~-----l~~~~~-~~w---~~~~r~~l~~----~~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALRE--WRGPV-----LDDLRD-FQF---VEPFATALVE----DKVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT--CCSST-----TGGGTT-STT---HHHHHHHHHH----HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh--Ccccc-----cccCcc-hHH---HHHHHHHHHH----HHHHHHHHHHHHHHHCC
Confidence            345667788899998888887763  11110     000111 111   1111111111    13456778899999999


Q ss_pred             CHHHHHHHHHHhhc-C-CcHHHHHHHHHHHHHcCchHHHHHHHHHHH-----HcCCccchhHH
Q 044786          269 LLRDAERVFELIVD-K-KNIASWNAMLVGYIRNGLYVEATKFLYLMK-----ASGIQIQESLI  324 (340)
Q Consensus       269 ~~~~A~~~~~~~~~-~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~t~  324 (340)
                      ++++|...++.+.. . -+...|..++.+|.+.|+..+|++.|+++.     +.|+.|+..|-
T Consensus        82 ~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          82 RASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             CchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            99999999999876 3 488999999999999999999999999974     46999998763

>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=97.87  E-value=0.00015  Score=49.21  Aligned_cols=90  Identities=12%  Similarity=0.223  Sum_probs=51.1

Q ss_pred             HHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcc-------cHHHHH
Q 044786           15 CLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFN-------SWAVMI   84 (340)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~-------~~~~li   84 (340)
                      .+-..+.+.|++++|++.|+...+.  -+.+...+..+..+|.+.|++++|++.++...+   ++..       +|..+.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            3445566666666666666666665  233556666666666666666666666666542   1222       233344


Q ss_pred             HHHHcccChhHHHHHHHHHHHh
Q 044786           85 VGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        85 ~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      ..+...+++++|++.|++....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc
Confidence            4445555666666666555544

>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=97.86  E-value=8.8e-05  Score=53.14  Aligned_cols=63  Identities=5%  Similarity=-0.088  Sum_probs=35.3

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .|..+..++.+.|++++|+..+++.++..      +.+...|..+..++...|++++|.+.|+...+..
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~------p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEID------PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhh------hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            34445555555666666666666655543      3344455555566666666666666666555543

>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=97.85  E-value=0.0039  Score=49.38  Aligned_cols=265  Identities=11%  Similarity=0.042  Sum_probs=145.3

Q ss_pred             CcchhHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHH
Q 044786            9 TTDMYTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYV   88 (340)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~   88 (340)
                      +..--..+.+-|.+.|.++.|..+|..+..          |..++..+.+.+++..|.+.+....  +..+|..+...+.
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~d----------~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~   80 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVSN----------FGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACV   80 (336)
T ss_dssp             ----------------CTTTHHHHHHHTTC----------HHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCCC----------HHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence            333445677888899999999999986653          3467778888999999988887553  5568888888888


Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCH
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      +.....-+     ++...  ..   ..+......++..|-..|.+++...+++...... ..+...++.++..|++.+. 
T Consensus        81 ~~~e~~la-----~i~~~--~~---~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-  148 (336)
T d1b89a_          81 DGKEFRLA-----QMCGL--HI---VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-  148 (336)
T ss_dssp             HTTCHHHH-----HHTTT--TT---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-
T ss_pred             hCcHHHHH-----HHHHH--Hh---hcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-
Confidence            77665443     12111  11   3455555778899999999999999988776432 4567788899999988653 


Q ss_pred             HHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcc--------cCCChhhHHHHHHhcccCCchhchHHH
Q 044786          169 EDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRER--------IKKNSYTFSSVLKACGGVDDDGNCGRQ  240 (340)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------~~p~~~t~~~ll~~~~~~~~~~~~~~~  240 (340)
                      ++..+.++....  ......++..|-+.+.+.++.-++.++.+..        -.++..-....+..+.+..+.+. ...
T Consensus       149 ~kl~e~l~~~s~--~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~-~~~  225 (336)
T d1b89a_         149 QKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVEL-YYR  225 (336)
T ss_dssp             HHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHH-HHH
T ss_pred             HHHHHHHHhccc--cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHH-HHH
Confidence            444444443321  1222333444444444444444444332110        12233333444455555555533 333


Q ss_pred             HHHHHHHhCCCccHHHHHHHHHHHhccCCHHHH-------------HHHHHHhhcCCcHHHHHHHHHHHHHcCchHH
Q 044786          241 MHANIVKIGLESDEYVQCGLVDMYGKCRLLRDA-------------ERVFELIVDKKNIASWNAMLVGYIRNGLYVE  304 (340)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A-------------~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  304 (340)
                      ......+.  .|  ...+.++......-+..+.             ...++......+....+++...|...++++.
T Consensus       226 ~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n~~~vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         226 AIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQA  298 (336)
T ss_dssp             HHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcChHHHHHHHHHHHhCcchhHH
Confidence            33333322  22  2233444444444444444             4444444434566778888888888888654

>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=97.80  E-value=0.0048  Score=48.91  Aligned_cols=238  Identities=8%  Similarity=-0.002  Sum_probs=141.2

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCcCCcccHHHHHHHHHcccC
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNSWAVMIVGYVDVAD   92 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~   92 (340)
                      |..++..+.+.++++.|.+++....       +..+|..+...+.+......|.-+ ......+......++..|-..|.
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k~~~~~l~~~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~  114 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACVDGKEFRLAQMC-GLHIVVHADELEELINYYQDRGY  114 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHHHHHHHHTTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC-------CHHHHHHHHHHHHhCcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCC
Confidence            4456666667777777766654331       567888888888888777655332 22122344445678899999999


Q ss_pred             hhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHH
Q 044786           93 YQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDAD  172 (340)
Q Consensus        93 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  172 (340)
                      +++...+++......      ..+...++.++..+++.+. +   ++.+.+....-..+.   ..++..|.+.+-++++.
T Consensus       115 ~e~Li~~Le~~~~~~------~~~~~~~~~L~~lyak~~~-~---kl~e~l~~~s~~y~~---~k~~~~c~~~~l~~elv  181 (336)
T d1b89a_         115 FEELITMLEAALGLE------RAHMGMFTELAILYSKFKP-Q---KMREHLELFWSRVNI---PKVLRAAEQAHLWAELV  181 (336)
T ss_dssp             HHHHHHHHHHHTTST------TCCHHHHHHHHHHHHTTCH-H---HHHHHHHHHSTTSCH---HHHHHHHHTTTCHHHHH
T ss_pred             hHHHHHHHHHHHcCC------ccchHHHHHHHHHHHHhCh-H---HHHHHHHhccccCCH---HHHHHHHHHcCChHHHH
Confidence            999999999876432      5667788889998888643 2   344444432211121   23445555555555555


Q ss_pred             HHHHHcccC------------ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhc------------
Q 044786          173 FVFSQLKRH------------NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC------------  228 (340)
Q Consensus       173 ~~~~~~~~~------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~------------  228 (340)
                      -++..+.+.            ++.-....+..+.+.++++...++.....+.  .|+  ..+.++...            
T Consensus       182 ~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~--~i~~lL~~v~~~~d~~r~V~~  257 (336)
T d1b89a_         182 FLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPL--LLNDLLMVLSPRLDHTRAVNY  257 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGG--GHHHHHHHHGGGCCHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHH--HHHHHHHHhccCCCHHHHHHH
Confidence            555554432            2222344566677777777666666655442  342  223333333            


Q ss_pred             -ccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHH
Q 044786          229 -GGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFEL  279 (340)
Q Consensus       229 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  279 (340)
                       .+.+++ .....+++.....|   +..+.++|.+.|...++++.-++..+.
T Consensus       258 ~~k~~~l-~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i~~  305 (336)
T d1b89a_         258 FSKVKQL-PLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSIDA  305 (336)
T ss_dssp             HHHTTCT-TTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhcCCc-HHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHHHH
Confidence             344444 23445555544444   346888888899888887665555543

>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=97.80  E-value=0.0039  Score=47.70  Aligned_cols=191  Identities=10%  Similarity=-0.067  Sum_probs=108.1

Q ss_pred             HHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh----hcCHHHHHHHHHHcccC-ChhhHHHHHHHH
Q 044786          119 IIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK----FRCLEDADFVFSQLKRH-NTVVWTAKIVNN  193 (340)
Q Consensus       119 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~li~~~  193 (340)
                      .+..|...+.+.+++++|.+.|+...+.|   +...+..|...|..    ..+...|...+....++ +......+...+
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~   80 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLY   80 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhcccccc
Confidence            44445555555666666666666666555   33444445555544    34566666666665544 333333333333


Q ss_pred             hc----cCchhHHHHHHHHHhhcccCCChhhHHHHHHhc--ccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhc-
Q 044786          194 CR----EGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC--GGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGK-  266 (340)
Q Consensus       194 ~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~-  266 (340)
                      ..    ..+.+.|...++.....|......... .....  ........ +.........   ..+...+..|...|.. 
T Consensus        81 ~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~-~~~~~~~~~~~~~~~-a~~~~~~~~~---~~~~~~~~~L~~~~~~~  155 (265)
T d1ouva_          81 YSGQGVSQNTNKALQYYSKACDLKYAEGCASLG-GIYHDGKVVTRDFKK-AVEYFTKACD---LNDGDGCTILGSLYDAG  155 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH-HHHHHCSSSCCCHHH-HHHHHHHHHH---TTCHHHHHHHHHHHHHT
T ss_pred             ccccccchhhHHHHHHHhhhhhhhhhhHHHhhc-ccccCCCcccchhHH-HHHHhhhhhc---ccccchhhhhhhhhccC
Confidence            32    456677777777776655322211111 11111  11222211 2333333222   3355566666666664 


Q ss_pred             ---cCCHHHHHHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHHHHHHHcCC
Q 044786          267 ---CRLLRDAERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFLYLMKASGI  317 (340)
Q Consensus       267 ---~~~~~~A~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~  317 (340)
                         ..+...+...++...+.++......+-..|..    .+++++|+.+|++..+.|.
T Consensus       156 ~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~  213 (265)
T d1ouva_         156 RGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN  213 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhcccC
Confidence               55677888888888777788877777777765    6789999999999988873

>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=97.78  E-value=0.00012  Score=51.51  Aligned_cols=64  Identities=14%  Similarity=-0.017  Sum_probs=48.0

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      +|+.+..+|.+.|++++|++.+++.++.+      +.+..+|..+..++...|++++|...|+...+..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~------p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID------KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc------chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            45667777778888888888888877774      45666777888888888888888888877777753

>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=97.78  E-value=0.00027  Score=50.47  Aligned_cols=63  Identities=8%  Similarity=0.081  Sum_probs=44.4

Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .|+.+..+|.+.|++++|+..+++.+...      +.+...|..+..++...|++++|...|+...+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~------p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            35556666777777777777777777764      4556677777777777777777777777777654

>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=97.70  E-value=0.00067  Score=47.42  Aligned_cols=65  Identities=17%  Similarity=0.062  Sum_probs=46.8

Q ss_pred             hHHHHHHHHHHhhcCHHHHHHHHHHccc---CChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChh
Q 044786          153 SLTGSLINFYGKFRCLEDADFVFSQLKR---HNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSY  219 (340)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  219 (340)
                      .+|+.+..+|.+.|++++|.+.++...+   .++.+|..+..++...|++++|+..|++..+.  .|+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~  135 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNL  135 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCH
Confidence            3566677777888888888888777642   25667777888888888888888888887763  45543

>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=97.69  E-value=0.00021  Score=51.02  Aligned_cols=95  Identities=7%  Similarity=0.029  Sum_probs=74.8

Q ss_pred             hHHHHHHhhhccchhhHHHHHHHHHhhc-------------CCC-CCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---C
Q 044786           13 YTCLIKECTFQKDSAGAFELLNHIRKRV-------------NIK-PTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---R   75 (340)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~-------------g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~   75 (340)
                      +......+...|+++.|++.|....+..             .+. .....+..+..++.+.|++++|+..++...+   .
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~  109 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  109 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh
Confidence            3445566778899999999998775420             011 2345677788889999999999999998874   3


Q ss_pred             CcccHHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           76 DFNSWAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        76 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      ++.+|..+..++...|++++|++.|++..+..
T Consensus       110 ~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1         110 NTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            55578899999999999999999999999984

>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=97.62  E-value=0.0012  Score=46.96  Aligned_cols=96  Identities=7%  Similarity=-0.058  Sum_probs=75.7

Q ss_pred             hhHHHHHHhhhccchhhHHHHHHHHHhhcCCCC-------------CHHHHHHHHHHHHhcCChhHHHHHHhhcCc---C
Q 044786           12 MYTCLIKECTFQKDSAGAFELLNHIRKRVNIKP-------------TLLFLNRLLLMHVSCGQLDTARQLFDEMPL---R   75 (340)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~g~~~-------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~   75 (340)
                      .+.-....+.+.|++..|...|+.........+             ....|+.+..+|.+.|++++|+..++....   .
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~   96 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA   96 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcccc
Confidence            445566778899999999999988775322111             124466677788999999999999998773   3


Q ss_pred             CcccHHHHHHHHHcccChhHHHHHHHHHHHhh
Q 044786           76 DFNSWAVMIVGYVDVADYQECITLFAEMMKRK  107 (340)
Q Consensus        76 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  107 (340)
                      +..+|..+..++...|++++|...|.+.....
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            56678888999999999999999999999873

>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=97.57  E-value=0.00074  Score=46.68  Aligned_cols=113  Identities=8%  Similarity=0.000  Sum_probs=65.7

Q ss_pred             HHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccc----------hhhHHHHHHHHHHcCCCCchhHHH
Q 044786           87 YVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMN----------MELGKQVHGLLFKLGSSRNISLTG  156 (340)
Q Consensus        87 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~  156 (340)
                      |-+.+.+++|++.|+...+..      +.+..++..+..++...++          +++|...|+...+..+. +..+|.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~------P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~   79 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN------PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVW   79 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC------TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC------CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHh
Confidence            345567888888888888884      5566677777777765443          45566666666665533 455555


Q ss_pred             HHHHHHHhhcCHHHHHHHHHHcccCChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhc
Q 044786          157 SLINFYGKFRCLEDADFVFSQLKRHNTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKAC  228 (340)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~  228 (340)
                      .+..+|...|++..           +.         ....+++++|.+.|++..+  +.|+..+|...+..+
T Consensus        80 ~lG~~y~~~g~~~~-----------~~---------~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~  129 (145)
T d1zu2a1          80 CIGNAYTSFAFLTP-----------DE---------TEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT  129 (145)
T ss_dssp             HHHHHHHHHHHHCC-----------CH---------HHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHcccchh-----------hH---------HHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH
Confidence            56655555443210           00         0001234666666666665  356666666555554

>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=97.57  E-value=0.00031  Score=48.70  Aligned_cols=69  Identities=12%  Similarity=-0.112  Sum_probs=43.2

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCCh----------hHHHHHHhhcC---cCCcccHHHHHHH
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQL----------DTARQLFDEMP---LRDFNSWAVMIVG   86 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~----------~~a~~~~~~~~---~~~~~~~~~li~~   86 (340)
                      |-+.+.+++|.+.|+...+.  -|.+..++..+..++...+++          ++|+..|++..   ..+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHH
Confidence            45667899999999999887  355677888888777755444          44555555444   1233345555554


Q ss_pred             HHcc
Q 044786           87 YVDV   90 (340)
Q Consensus        87 ~~~~   90 (340)
                      |...
T Consensus        85 y~~~   88 (145)
T d1zu2a1          85 YTSF   88 (145)
T ss_dssp             HHHH
T ss_pred             HHHc
Confidence            4433

>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=97.40  E-value=1.8e-05  Score=67.57  Aligned_cols=130  Identities=5%  Similarity=-0.122  Sum_probs=65.3

Q ss_pred             cChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHH
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLED  170 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (340)
                      +.++.++..+....+..      .++...+..+...+.+.|+.+.|...++...+...   ...+..+...+...|++++
T Consensus       100 ~~Y~~ai~~l~~~~~l~------~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~---~~~~~~LG~l~~~~~~~~~  170 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD------LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC---QHCLVHLGDIARYRNQTSQ  170 (497)
T ss_dssp             HHHHHHHHHHTC-------------------------------------CCHHHHHHH---HHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHCCC------hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH---HHHHHHHHHHHHHcccHHH
Confidence            44444444444433331      34555667777777777888887777665554321   2456667778888888888


Q ss_pred             HHHHHHHccc--C-ChhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCChhhHHHHHHhccc
Q 044786          171 ADFVFSQLKR--H-NTVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKNSYTFSSVLKACGG  230 (340)
Q Consensus       171 a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  230 (340)
                      |...|++..+  | +..+|+.+...+...|+..+|+..|.+..... +|-..++..+...+.+
T Consensus       171 A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         171 AESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            8888887652  3 56678888888888888888888888777643 3455666666666543

>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=97.33  E-value=0.0001  Score=56.89  Aligned_cols=116  Identities=11%  Similarity=0.007  Sum_probs=48.9

Q ss_pred             cccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCH
Q 044786           89 DVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCL  168 (340)
Q Consensus        89 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (340)
                      +.|++++|+..+++.++..      +-+...+..+...++..|++++|.+.++...+.... +...+..+...+...+..
T Consensus         8 ~~G~l~eAl~~l~~al~~~------P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS------PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhcccc
Confidence            3455555555555555442      333444455555555555555555555554444321 222233333333333333


Q ss_pred             HHHHHHHHHcc---cC-ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          169 EDADFVFSQLK---RH-NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       169 ~~a~~~~~~~~---~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                      +++..-.....   .+ +...+......+...|+.++|..++++..+
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            33222211110   11 112222333445555666666666666554

>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=97.30  E-value=0.0005  Score=52.88  Aligned_cols=117  Identities=15%  Similarity=-0.019  Sum_probs=72.2

Q ss_pred             HHhcCChhHHHHHHhhcCc---CCcccHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchH-HHHHHHHHHhhhcc
Q 044786           56 HVSCGQLDTARQLFDEMPL---RDFNSWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPA-WIIVCVLKACVCTM  131 (340)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-~~~~~ll~~~~~~~  131 (340)
                      ..+.|++++|++.+++..+   .|...+..+...++..|++++|.+.++...+.       .|+. ..+..+...+...+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l-------~P~~~~~~~~l~~ll~a~~   78 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL-------FPEYLPGASQLRHLVKAAQ   78 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-------CGGGHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------CCCcHHHHHHHHHHHHhcc
Confidence            4567889999999888763   35667888889999999999999999998887       3443 34433333333333


Q ss_pred             chhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          132 NMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       132 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      ..+++..-.......+..++...+......+...|+.++|.+.+++..
T Consensus        79 ~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~  126 (264)
T d1zbpa1          79 ARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIE  126 (264)
T ss_dssp             HHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             ccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            333222111110111112223334445566778889999988887764

>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=97.29  E-value=0.0036  Score=43.61  Aligned_cols=66  Identities=8%  Similarity=-0.004  Sum_probs=38.4

Q ss_pred             cHHHH--HHHHHcccChhHHHHHHHHHHHhhcCCccccc------hHHHHHHHHHHhhhccchhhHHHHHHHHH
Q 044786           79 SWAVM--IVGYVDVADYQECITLFAEMMKRKKGHMLLVF------PAWIIVCVLKACVCTMNMELGKQVHGLLF  144 (340)
Q Consensus        79 ~~~~l--i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  144 (340)
                      +|..+  ...+...|++++|++.|++.++.....+...+      ....|+.+..++.+.|++++|...++...
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            45555  34556678888888888888876422210000      13455666666666666666666555544

>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=97.29  E-value=0.00055  Score=58.14  Aligned_cols=224  Identities=8%  Similarity=-0.104  Sum_probs=109.7

Q ss_pred             hHHHHHHHHHhhcCCCCC-HHHHHHHHHHHHhcCChhHHHHHHhhcCcCCccc-HHHHHHHHHcccChhHHHHHHHHHHH
Q 044786           28 GAFELLNHIRKRVNIKPT-LLFLNRLLLMHVSCGQLDTARQLFDEMPLRDFNS-WAVMIVGYVDVADYQECITLFAEMMK  105 (340)
Q Consensus        28 ~a~~~~~~m~~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~  105 (340)
                      +|.+.|++..+.   +|+ ...+..+-.++...|++++|   ++++...|+.. ...-+........+..+.+.++...+
T Consensus         4 eA~q~~~qA~~l---~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~e~~Lw~~~y~~~ie~~r~~~k   77 (497)
T d1ya0a1           4 QSAQYLRQAEVL---KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKVEQDLWNHAFKNQITTLQGQAK   77 (497)
T ss_dssp             HHHHHHHHHHHH---HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTHHHHHHHHHTHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHc---CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhHHHHHHHHHHHHHHHHHHHhcc
Confidence            567777777654   444 23444555566666666665   55544323221 00001111111224455666665554


Q ss_pred             hhcCCccccchHHHHHHHHHH--hhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcccCC-
Q 044786          106 RKKGHMLLVFPAWIIVCVLKA--CVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLKRHN-  182 (340)
Q Consensus       106 ~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  182 (340)
                      ..  .   .++..-....+..  ....+.++.+...++...+.. .++...+..+...+.+.|+.++|...+....+++ 
T Consensus        78 ~~--~---~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~  151 (497)
T d1ya0a1          78 NR--A---NPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC  151 (497)
T ss_dssp             CS--S---CTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHHH
T ss_pred             cc--c---CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH
Confidence            32  1   1222211111111  222344555555444333332 2245566777888888899988888777655443 


Q ss_pred             hhhHHHHHHHHhccCchhHHHHHHHHHhhcccCCC-hhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHH
Q 044786          183 TVVWTAKIVNNCREGHFHQVFNDFKEMGRERIKKN-SYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLV  261 (340)
Q Consensus       183 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  261 (340)
                      ..++..+...+...|++++|...|++..+.  .|+ ...|+.+-..+...|+..+ |...+....... +|-+.++..|.
T Consensus       152 ~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~-A~~~y~ral~~~-~~~~~a~~nL~  227 (497)
T d1ya0a1         152 QHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLT-TIFYYCRSIAVK-FPFPAASTNLQ  227 (497)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHH-HHHHHHHHHSSS-BCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHH-HHHHHHHHHhCC-CCCHHHHHHHH
Confidence            346777888899999999999999998874  565 5789999999999999866 555555544433 56777788887


Q ss_pred             HHHhcc
Q 044786          262 DMYGKC  267 (340)
Q Consensus       262 ~~~~~~  267 (340)
                      ..+.+.
T Consensus       228 ~~~~~~  233 (497)
T d1ya0a1         228 KALSKA  233 (497)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            776544

>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=97.14  E-value=0.0019  Score=45.15  Aligned_cols=95  Identities=6%  Similarity=0.005  Sum_probs=69.9

Q ss_pred             HHHHHHH--HHHhhhccchhhHHHHHHHHHHcCCC-C----------chhHHHHHHHHHHhhcCHHHHHHHHHHccc---
Q 044786          117 AWIIVCV--LKACVCTMNMELGKQVHGLLFKLGSS-R----------NISLTGSLINFYGKFRCLEDADFVFSQLKR---  180 (340)
Q Consensus       117 ~~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  180 (340)
                      ..+|..+  .....+.|++++|++.|++.++.... |          ....|+.+..+|.+.|++++|...+++..+   
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3455555  45566779999999999988764321 1          135678889999999999999888877542   


Q ss_pred             ----C-------ChhhHHHHHHHHhccCchhHHHHHHHHHhh
Q 044786          181 ----H-------NTVVWTAKIVNNCREGHFHQVFNDFKEMGR  211 (340)
Q Consensus       181 ----~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  211 (340)
                          .       ....++.+..+|...|++++|+..|++..+
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                1       122567788889999999999999988764

>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=96.96  E-value=0.0044  Score=39.01  Aligned_cols=66  Identities=9%  Similarity=-0.006  Sum_probs=36.9

Q ss_pred             HHHHHHHcccChhHHHHHHHHHHHhhcCCcccc-chHHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           82 VMIVGYVDVADYQECITLFAEMMKRKKGHMLLV-FPAWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        82 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .+...+.+.|++++|+..|++..+......... ....++..+..++.+.|++++|...++++++..
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            345556666666666666666655421110001 123456666666666666666666666666654

>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=96.49  E-value=0.0066  Score=38.11  Aligned_cols=59  Identities=5%  Similarity=-0.014  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcCc-----C-----CcccHHHHHHHHHcccChhHHHHHHHHHHHh
Q 044786           48 FLNRLLLMHVSCGQLDTARQLFDEMPL-----R-----DFNSWAVMIVGYVDVADYQECITLFAEMMKR  106 (340)
Q Consensus        48 ~~~~li~~~~~~~~~~~a~~~~~~~~~-----~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  106 (340)
                      .+-.+...+.+.|++++|...|++..+     +     ...+++.+..++.+.|++++|++.+++.++.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            333445555555666555555554431     0     1124666777777777777777777777776

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.65  E-value=0.14  Score=33.27  Aligned_cols=119  Identities=13%  Similarity=-0.021  Sum_probs=65.3

Q ss_pred             hhhccchhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---------------------CCcc
Q 044786           20 CTFQKDSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---------------------RDFN   78 (340)
Q Consensus        20 ~~~~~~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---------------------~~~~   78 (340)
                      +.-.|..++..+++......    -+..-||.+|.-....-+-+...+.++.+-+                     .+..
T Consensus        12 ~ildG~ve~Gveii~k~~~s----s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se   87 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS----STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNE   87 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH----SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCH
T ss_pred             HHHhhhHHhHHHHHHHHccc----CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHH
Confidence            34467788888888777765    2455566666555555555555555555431                     1222


Q ss_pred             cHHHHHHHHHcccChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCC
Q 044786           79 SWAVMIVGYVDVADYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGS  148 (340)
Q Consensus        79 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  148 (340)
                      -++..++....+|+-+...++++.+.+.+      .|+....-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn~------~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKNN------EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC--C------CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC------CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            34444555555555555555555544443      44555555555555555555555555555555554

>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=95.14  E-value=0.24  Score=32.76  Aligned_cols=112  Identities=10%  Similarity=-0.020  Sum_probs=69.2

Q ss_pred             chhHHHHHHHHHhhcccCCChhhHHHHHHhcccCCchhchHHHHHHHHHHhCCCccHHHHHHHHHHHhc----cCCHHHH
Q 044786          198 HFHQVFNDFKEMGRERIKKNSYTFSSVLKACGGVDDDGNCGRQMHANIVKIGLESDEYVQCGLVDMYGK----CRLLRDA  273 (340)
Q Consensus       198 ~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A  273 (340)
                      ++++|+..|++..+.|..   .....+.  .....+.++ +..+++...+.|   ++..+..|-..|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~-a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQK-LFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHH-HHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHH-HHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            556667777666665421   1122222  222334434 555555555555   23333334444433    4578899


Q ss_pred             HHHHHHhhcCCcHHHHHHHHHHHHH----cCchHHHHHHHHHHHHcCCc
Q 044786          274 ERVFELIVDKKNIASWNAMLVGYIR----NGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~  318 (340)
                      .++|++..+..++.....|-..|..    ..+.++|.++|++-.+.|..
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            9999998877777777777777776    56889999999998888754

>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=94.76  E-value=0.31  Score=32.16  Aligned_cols=109  Identities=13%  Similarity=0.039  Sum_probs=56.0

Q ss_pred             ChhHHHHHHHHHHHhhcCCccccchHHHHHHHHHHhhhccchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHh----hcC
Q 044786           92 DYQECITLFAEMMKRKKGHMLLVFPAWIIVCVLKACVCTMNMELGKQVHGLLFKLGSSRNISLTGSLINFYGK----FRC  167 (340)
Q Consensus        92 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~  167 (340)
                      ++++|+++|++..+.+      .+...  ..+.  .....+.+++.+.++...+.|   ++..+..|...|..    ..+
T Consensus         8 d~~~A~~~~~kaa~~g------~~~a~--~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d   74 (133)
T d1klxa_           8 DLKKAIQYYVKACELN------EMFGC--LSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKD   74 (133)
T ss_dssp             HHHHHHHHHHHHHHTT------CTTHH--HHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCC
T ss_pred             CHHHHHHHHHHHHHCC------Chhhh--hhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchh
Confidence            5667777777766653      22221  1222  223345666666666666665   33344444444433    234


Q ss_pred             HHHHHHHHHHcccC-ChhhHHHHHHHHhc----cCchhHHHHHHHHHhhcc
Q 044786          168 LEDADFVFSQLKRH-NTVVWTAKIVNNCR----EGHFHQVFNDFKEMGRER  213 (340)
Q Consensus       168 ~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~  213 (340)
                      .++|.+.|+...+. ++.....|-..|..    ..+.++|..+|++..+.|
T Consensus        75 ~~~A~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          75 LRKAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            56666666665433 34444444444443    235566666666655544

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.68  E-value=0.51  Score=30.58  Aligned_cols=64  Identities=16%  Similarity=-0.007  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhhc--CCcHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCc
Q 044786          255 YVQCGLVDMYGKCRLLRDAERVFELIVD--KKNIASWNAMLVGYIRNGLYVEATKFLYLMKASGIQ  318 (340)
Q Consensus       255 ~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  318 (340)
                      ..++.-++.+.++|+-+.-.++++.+..  ++++...-.+..+|.+.|...++-+++.+..+.|++
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            3445566777888899999999888654  478888888999999999999999999999999976

>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=90.59  E-value=1.1  Score=28.89  Aligned_cols=49  Identities=18%  Similarity=-0.002  Sum_probs=27.4

Q ss_pred             cchhhHHHHHHHHHHcCCCCchhHHHHHHHHHHhhcCHHHHHHHHHHcc
Q 044786          131 MNMELGKQVHGLLFKLGSSRNISLTGSLINFYGKFRCLEDADFVFSQLK  179 (340)
Q Consensus       131 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  179 (340)
                      .+.+++..+++++.+.+.......+..|.-+|.+.|++++|.+.++.+.
T Consensus        52 ~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L  100 (124)
T d2pqrb1          52 NDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  100 (124)
T ss_dssp             HHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4566777777766655322112344445555666666666666666554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.94  E-value=0.47  Score=29.03  Aligned_cols=61  Identities=10%  Similarity=0.087  Sum_probs=47.1

Q ss_pred             chhhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcCc---CCcccHHHHHHH
Q 044786           25 DSAGAFELLNHIRKRVNIKPTLLFLNRLLLMHVSCGQLDTARQLFDEMPL---RDFNSWAVMIVG   86 (340)
Q Consensus        25 ~~~~a~~~~~~m~~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   86 (340)
                      |.=++.+-+..+-.. .+-|++.+..+.+.+|-|.+++..|.++|+.++.   .+-..|..++.-
T Consensus        21 D~we~rrgmN~l~~~-DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGY-DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTS-SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            444566666666666 7889999999999999999999999999998872   245567776654

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.34  E-value=2  Score=26.20  Aligned_cols=56  Identities=14%  Similarity=0.165  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHH
Q 044786          238 GRQMHANIVKIGLESDEYVQCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAML  293 (340)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li  293 (340)
                      ...-+..+....+.|++.+..+-+++|-+.+++..|.++|+.++.+  ++...|..++
T Consensus        25 ~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yil   82 (105)
T d1v54e_          25 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            4455555666677888888888888888888888888888887753  2334554443

>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=84.98  E-value=1.3  Score=28.50  Aligned_cols=51  Identities=12%  Similarity=0.137  Sum_probs=34.2

Q ss_pred             cChhHHHHHHHHHHHhhcCCccccch-HHHHHHHHHHhhhccchhhHHHHHHHHHHcC
Q 044786           91 ADYQECITLFAEMMKRKKGHMLLVFP-AWIIVCVLKACVCTMNMELGKQVHGLLFKLG  147 (340)
Q Consensus        91 g~~~~a~~~~~~m~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  147 (340)
                      .+.++++.++++....+      +.+ ...+..+.-+|.+.|+++.|.+.++.+++..
T Consensus        52 ~d~~~gI~lLe~~~~~~------p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          52 NDERLGVKILTDIYKEA------ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             HHHHHHHHHHHHHHHHC------GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhcC------chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            45567777777777652      222 2455666777777888888888887777764

>d1ug3a1 a.118.1.14 (A:1235-1427) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Eukaryotic initiation factor eIF4G
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.04  E-value=2.6  Score=29.61  Aligned_cols=27  Identities=11%  Similarity=0.096  Sum_probs=18.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcCcC
Q 044786           49 LNRLLLMHVSCGQLDTARQLFDEMPLR   75 (340)
Q Consensus        49 ~~~li~~~~~~~~~~~a~~~~~~~~~~   75 (340)
                      ...++.-|...++.++|...++++..|
T Consensus        13 ~~~il~Ey~~~~D~~Ea~~~l~el~~p   39 (193)
T d1ug3a1          13 SKAIIEEYLHLNDMKEAVQCVQELASP   39 (193)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHTTCCG
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCc
Confidence            345666677777777777777777654

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.86  E-value=2.7  Score=27.23  Aligned_cols=65  Identities=12%  Similarity=0.032  Sum_probs=38.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhcC--CcHHHHHHHHHHHHHcCchH--HHHHHHHHHHHcCCccch
Q 044786          257 QCGLVDMYGKCRLLRDAERVFELIVDK--KNIASWNAMLVGYIRNGLYV--EATKFLYLMKASGIQIQE  321 (340)
Q Consensus       257 ~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~g~~~~~  321 (340)
                      ...++.-|...|+.++|...++++..+  .....+..+..++-+.+...  .+.+++..+...|+-+..
T Consensus        10 ~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~   78 (129)
T d2nsza1          10 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITID   78 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHH
Confidence            356777788888888888888887532  12233444444444444432  246677777777654443