Citrus Sinensis ID: 040580

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410--
Protein Sequence
METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
Secondary Structure (PSIPRED)
cEEEHHHHHHHccccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHcccccccHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHccccHHHHHHHHHHHHHcccccEEHHHHHHHHHHcccHHHHHHHHHHHcccccEEHHHHHHHHHHccccHHEEEccc
Coil and Loop (DISEMBL)
metfslslhgsfkfkrfnvpshqthpkngDLARKIIRYRKQEGFVDCASLVEdlgrkkkphlAHQLVNTvksegllpdnsTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQvscrnadllPEVYSRAISCFGKQGQLELMENTLKEMVSrgfsvdsatgNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRmseagfhpdlttfNIRAVAFSRMSMFWDLHLSLEHmkhesvgpdlvtYGCVVDAYLDKrlgrnldfglskmnlddspvvstdpyvfeafgkgdfhssSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
Flexible Loop (DISEMBL)
metfslslhgsfkfkrfnvpshqthpkngdLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGfsvdsatgNAFIIYYSRFGSLTEMETAYGRLKrsrhlidkegirAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGlskmnlddspvVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVylkkqlrrnqifwny
Low Complexity Region (SEG)
METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQvvweellsssfvlsvqvlsdlMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDlgnllwnllllSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
Disordered region (IsUnstruct)
*****************************DLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFW**
Disordered Region (DISOPRED)
METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
Disordered Region (DISEMBL)
METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
Disordered Region (DISPRO)
METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY
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	412	2.2.26 [Sep-21-2011]
Q9M2A1	415	Pentatricopeptide repeat-	yes	no	0.987	0.980	0.567	1e-136
O23278	501	Pentatricopeptide repeat-	no	no	0.788	0.648	0.266	9e-23
Q9LYZ9	819	Pentatricopeptide repeat-	no	no	0.713	0.358	0.236	2e-14
Q9SCP4	447	Pentatricopeptide repeat-	no	no	0.742	0.684	0.243	8e-12
O64624	822	Pentatricopeptide repeat-	no	no	0.645	0.323	0.219	3e-11
Q5G1S8	1440	Pentatricopeptide repeat-	no	no	0.682	0.195	0.209	4e-11
Q8L844	709	Pentatricopeptide repeat-	no	no	0.817	0.475	0.198	1e-10
Q8S9D1	831	Pentatricopeptide repeat-	no	no	0.643	0.318	0.225	1e-10
Q9SQU6	486	Pentatricopeptide repeat-	no	no	0.720	0.611	0.204	3e-10
O65567	904	Pentatricopeptide repeat-	no	no	0.657	0.299	0.201	7e-10

>sp|Q9M2A1|PP263_ARATH Pentatricopeptide repeat-containing protein At3g42630 OS=Arabidopsis thaliana GN=At3g42630 PE=2 SV=2

 Score =  483 bits (1244), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 235/414 (56%), Positives = 307/414 (74%), Gaps = 7/414 (1%)

Query: 6   LSLHGSFKFKRFNVPSHQTHPKNGDLARKIIR-------YRKQEGFVDCASLVEDLGRKK 58
           LSL+ S K +   + S  T      +A+K+I+       + ++   VD A LV+ L +++
Sbjct: 2   LSLNLSLKPQHLKLLSCYTDSSAPSIAKKLIKESKLSRDFSQKIQIVDYAPLVQTLSQRR 61

Query: 59  KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLS 118
            P +AH++    KS  LLP+  TLCALMLC+A NGFVL A+ +W+E+++S FV  V V+S
Sbjct: 62  LPDVAHEIFLQTKSVNLLPNYRTLCALMLCFAENGFVLRARTIWDEIINSCFVPDVFVVS 121

Query: 119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR 178
            L+ AY + GCF+E+  I   V+ R++ LLP V S AISCFGK GQLELME  ++EM S+
Sbjct: 122 KLISAYEQFGCFDEVAKITKDVAARHSKLLPVVSSLAISCFGKNGQLELMEGVIEEMDSK 181

Query: 179 GFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML 238
           G  +++ T N  + YYS FGSL +ME AYGR+K+   +I++E IRAV   YLK+RKF+ L
Sbjct: 182 GVLLEAETANVIVRYYSFFGSLDKMEKAYGRVKKFGIVIEEEEIRAVVLAYLKQRKFYRL 241

Query: 239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVA 298
            EFL DVGLGR++LGN+LWN +LLSYA +FKMKSLQREF+ M +AGF PDLTTFNIRA+A
Sbjct: 242 REFLSDVGLGRRNLGNMLWNSVLLSYAADFKMKSLQREFIGMLDAGFSPDLTTFNIRALA 301

Query: 299 FSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVV 358
           FSRM++FWDLHL+LEHM+  ++ PDLVT+GCVVDAY+DKRL RNL+F  ++MNLDDSP+V
Sbjct: 302 FSRMALFWDLHLTLEHMRRLNIVPDLVTFGCVVDAYMDKRLARNLEFVYNRMNLDDSPLV 361

Query: 359 STDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
            TDP  FE  GKGDFH SSEA LEF  ++ WTYRKLI VYLKK+LRR+QIFWNY
Sbjct: 362 LTDPLAFEVLGKGDFHLSSEAVLEFSPRKNWTYRKLIGVYLKKKLRRDQIFWNY 415

Arabidopsis thaliana (taxid: 3702)

>sp|O23278|PP310_ARATH Pentatricopeptide repeat-containing protein At4g14190, chloroplastic OS=Arabidopsis thaliana GN=At4g14190 PE=2 SV=2

 Score =  108 bits (269), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 90/338 (26%), Positives = 152/338 (44%), Gaps = 13/338 (3%)

Query: 75  LLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEII 134
           L P      +++  YA++G   EA      +  +  +   +    L++AYG+   ++EI+
Sbjct: 163 LSPSLEIYNSIIHSYADDGKFEEAMFYLNHMKENGLLPITETYDGLIEAYGKWKMYDEIV 222

Query: 135 SIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY 194
             + ++           Y+  I  F + G L+ ME   + ++SR  +++ +T  + +  Y
Sbjct: 223 LCLKRMESDGCVRDHVTYNLLIREFSRGGLLKRMEQMYQSLMSRKMTLEPSTLLSMLEAY 282

Query: 195 SRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGN 254
           + FG + +ME    ++ R    +D+  +R ++  Y++   F  L +  R +   R     
Sbjct: 283 AEFGLIEKMEETCNKIIRFGISLDEGLVRKLANVYIENLMFSRLDDLGRGISASRTRRTE 342

Query: 255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEH 314
           L W L LL +A     K L      M EA    + T  NI  +A+S+M  F  + L L  
Sbjct: 343 LAWCLRLLCHARLVSRKGLDYVVKEMEEARVPWNTTFANIALLAYSKMGDFTSIELLLSE 402

Query: 315 MKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPV-VSTDPYVFEAFGKGDF 373
           ++ + V  DLVT G V D    +  G  +     K+   D PV + TDP V  AFGKG F
Sbjct: 403 LRIKHVKLDLVTVGIVFDLSEARFDGTGVFMTWKKIGFLDKPVEMKTDPLVHAAFGKGQF 462

Query: 374 HSSSEAFLEFKRQ---------RKWTYRKLIAVYLKKQ 402
             S E   E K Q         + WTY+ L+ + +K Q
Sbjct: 463 LRSCE---EVKNQSLGTRDGESKSWTYQYLMELVVKNQ 497

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYZ9|PP362_ARATH Pentatricopeptide repeat-containing protein At5g02860 OS=Arabidopsis thaliana GN=At5g02860 PE=2 SV=1

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 80/338 (23%), Positives = 133/338 (39%), Gaps = 44/338 (13%)

Query: 49  SLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSS 108
           SL+    R      A +L N +  +G  PD  T   L+  +   G V  A  ++EE+ ++
Sbjct: 354 SLISAYARDGMLDEAMELKNQMAEKGTKPDVFTYTTLLSGFERAGKVESAMSIFEEMRNA 413

Query: 109 SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEV--YSRAISCFGKQGQLE 166
               ++   +  +  YG  G F E++ I D+++     L P++  ++  ++ FG+ G   
Sbjct: 414 GCKPNICTFNAFIKMYGNRGKFTEMMKIFDEINV--CGLSPDIVTWNTLLAVFGQNGMDS 471

Query: 167 LMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVS 226
            +    KEM   GF  +  T N  I  YSR GS  +  T Y R+  +    D      V 
Sbjct: 472 EVSGVFKEMKRAGFVPERETFNTLISAYSRCGSFEQAMTVYRRMLDAGVTPDLSTYNTVL 531

Query: 227 FTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFK---MKSL---------- 273
               +   +    + L ++  GR     L +  LL +YA   +   M SL          
Sbjct: 532 AALARGGMWEQSEKVLAEMEDGRCKPNELTYCSLLHAYANGKEIGLMHSLAEEVYSGVIE 591

Query: 274 ----------------------QREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLS 311
                                 +R F  + E GF PD+TT N     + R  M    +  
Sbjct: 592 PRAVLLKTLVLVCSKCDLLPEAERAFSELKERGFSPDITTLNSMVSIYGRRQMVAKANGV 651

Query: 312 LEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSK 349
           L++MK     P + TY  ++  +      R+ DFG S+
Sbjct: 652 LDYMKERGFTPSMATYNSLMYMH-----SRSADFGKSE 684

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SCP4|PP279_ARATH Pentatricopeptide repeat-containing protein At3g53170 OS=Arabidopsis thaliana GN=At3g53170 PE=2 SV=1

 Score = 72.0 bits (175), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 87/357 (24%), Positives = 152/357 (42%), Gaps = 51/357 (14%)

Query: 54  LGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLS-SSFVL 112
           LG  K+P  A  L   + SEGL P      +L+  Y  +  + +A    E + S S    
Sbjct: 104 LGNCKQPDQASLLFEVMLSEGLKPTIDVYTSLISVYGKSELLDKAFSTLEYMKSVSDCKP 163

Query: 113 SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTL 172
            V   + L+    ++G F+ + SI+ ++S          Y+  I  +GK G  E ME+ L
Sbjct: 164 DVFTFTVLISCCCKLGRFDLVKSIVLEMSYLGVGCSTVTYNTIIDGYGKAGMFEEMESVL 223

Query: 173 KEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLK 231
            +M+  G S+ D  T N+ I  Y    ++ +ME+ Y R                      
Sbjct: 224 ADMIEDGDSLPDVCTLNSIIGSYGNGRNMRKMESWYSR---------------------- 261

Query: 232 ERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSY--AGNFKMKSLQREFMRMSEAGFHPDL 289
              F ++G         + D+    +N+L+LS+  AG +K      +FM   +  F    
Sbjct: 262 ---FQLMGV--------QPDITT--FNILILSFGKAGMYKKMCSVMDFME--KRFFSLTT 306

Query: 290 TTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSK 349
            T+NI    F +      +      MK++ V P+ +TY  +V+AY    L   +D  L +
Sbjct: 307 VTYNIVIETFGKAGRIEKMDDVFRKMKYQGVKPNSITYCSLVNAYSKAGLVVKIDSVLRQ 366

Query: 350 MNLDDSPVVSTDPY---VFEAFGK-GDFHSSSEAFLEFKRQR----KWTYRKLIAVY 398
             + +S VV   P+   +  A+G+ GD  +  E +++ + ++    K T+  +I  Y
Sbjct: 367 --IVNSDVVLDTPFFNCIINAYGQAGDLATMKELYIQMEERKCKPDKITFATMIKTY 421

Arabidopsis thaliana (taxid: 3702)

>sp|O64624|PP163_ARATH Pentatricopeptide repeat-containing protein At2g18940 OS=Arabidopsis thaliana GN=At2g18940 PE=2 SV=1

 Score = 70.1 bits (170), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 69/315 (21%), Positives = 125/315 (39%), Gaps = 49/315 (15%)

Query: 63  AHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD 122
           A  ++  +  +G++P+  T   ++  Y   G   EA  ++  +  +  V +    + ++ 
Sbjct: 370 AAGVIEMMTKKGVMPNAITYTTVIDAYGKAGKEDEALKLFYSMKEAGCVPNTCTYNAVLS 429

Query: 123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV 182
             G+    NE+I ++  +           ++  ++  G +G  + +    +EM S GF  
Sbjct: 430 LLGKKSRSNEMIKMLCDMKSNGCSPNRATWNTMLALCGNKGMDKFVNRVFREMKSCGFEP 489

Query: 183 DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTY------------- 229
           D  T N  I  Y R GS  +    YG + R+       G  A   TY             
Sbjct: 490 DRDTFNTLISAYGRCGSEVDASKMYGEMTRA-------GFNACVTTYNALLNALARKGDW 542

Query: 230 ---------LKERKF--------FMLGEFLRDVG-LGRKDLGNLL--------WNLLLLS 263
                    +K + F         ML  + +    LG + + N +        W LL   
Sbjct: 543 RSGENVISDMKSKGFKPTETSYSLMLQCYAKGGNYLGIERIENRIKEGQIFPSWMLLRTL 602

Query: 264 YAGNFKMKSL---QREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESV 320
              NFK ++L   +R F    + G+ PD+  FN     F+R +M+      LE ++ + +
Sbjct: 603 LLANFKCRALAGSERAFTLFKKHGYKPDMVIFNSMLSIFTRNNMYDQAEGILESIREDGL 662

Query: 321 GPDLVTYGCVVDAYL 335
            PDLVTY  ++D Y+
Sbjct: 663 SPDLVTYNSLMDMYV 677

Arabidopsis thaliana (taxid: 3702)

>sp|Q5G1S8|PP241_ARATH Pentatricopeptide repeat-containing protein At3g18110, chloroplastic OS=Arabidopsis thaliana GN=EMB1270 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 62/296 (20%), Positives = 125/296 (42%), Gaps = 15/296 (5%)

Query: 47   CASLVEDLGRKKKPHLAHQLVNTVKSEGL-LPDNSTLCALMLCYANNGFVLEAQVVWEEL 105
            C S+V    +   P  AHQ+VN  +++G     +     ++  Y       +A+ V   L
Sbjct: 719  CKSMVVVYCKLGFPETAHQVVNQAETKGFHFACSPMYTDIIEAYGKQKLWQKAESVVGNL 778

Query: 106  LSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQL 165
              S     ++  + LM AY + GC+    +I + +         E  +  +      G+L
Sbjct: 779  RQSGRTPDLKTWNSLMSAYAQCGCYERARAIFNTMMRDGPSPTVESINILLHALCVDGRL 838

Query: 166  ELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAV 225
            E +   ++E+   GF +  ++    +  ++R G++ E++  Y  +K + +L     IR  
Sbjct: 839  EELYVVVEELQDMGFKISKSSILLMLDAFARAGNIFEVKKIYSSMKAAGYL---PTIR-- 893

Query: 226  SFTYLKERKFFMLGEFLRDVGLGRKDLGN-------LLWNLLLLSYAGNFKMKSLQREFM 278
               Y    +    G+ +RD  +   ++          +WN +L  Y      K   + + 
Sbjct: 894  --LYRMMIELLCKGKRVRDAEIMVSEMEEANFKVELAIWNSMLKMYTAIEDYKKTVQVYQ 951

Query: 279  RMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAY 334
            R+ E G  PD TT+N   + + R     + +L ++ M++  + P L TY  ++ A+
Sbjct: 952  RIKETGLEPDETTYNTLIIMYCRDRRPEEGYLLMQQMRNLGLDPKLDTYKSLISAF 1007

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L844|PP413_ARATH Pentatricopeptide repeat-containing protein At5g42310, mitochondrial OS=Arabidopsis thaliana GN=At5g42310 PE=2 SV=1

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 75/377 (19%), Positives = 141/377 (37%), Gaps = 40/377 (10%)

Query: 50  LVEDL----GRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEEL 105
           LV D+     +   P  A QL+   ++ GL    +TL +++   A++G  LEA+ ++EEL
Sbjct: 271 LVNDIIMGFAKSGDPSKALQLLGMAQATGLSAKTATLVSIISALADSGRTLEAEALFEEL 330

Query: 106 LSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN--------------------- 144
             S      +  + L+  Y + G   +  S++ ++  R                      
Sbjct: 331 RQSGIKPRTRAYNALLKGYVKTGPLKDAESMVSEMEKRGVSPDEHTYSLLIDAYVNAGRW 390

Query: 145 ------------ADLLPE--VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAF 190
                        D+ P   V+SR ++ F  +G+ +     LKEM S G   D    N  
Sbjct: 391 ESARIVLKEMEAGDVQPNSFVFSRLLAGFRDRGEWQKTFQVLKEMKSIGVKPDRQFYNVV 450

Query: 191 IIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRK 250
           I  + +F  L    T + R+       D+     +   + K  +  +  E    +     
Sbjct: 451 IDTFGKFNCLDHAMTTFDRMLSEGIEPDRVTWNTLIDCHCKHGRHIVAEEMFEAMERRGC 510

Query: 251 DLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHL 310
                 +N+++ SY    +   ++R   +M   G  P++ T       + +   F D   
Sbjct: 511 LPCATTYNIMINSYGDQERWDDMKRLLGKMKSQGILPNVVTHTTLVDVYGKSGRFNDAIE 570

Query: 311 SLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDD-SPVVSTDPYVFEAFG 369
            LE MK   + P    Y  +++AY  + L          M  D   P +     +  AFG
Sbjct: 571 CLEEMKSVGLKPSSTMYNALINAYAQRGLSEQAVNAFRVMTSDGLKPSLLALNSLINAFG 630

Query: 370 KGDFHSSSEAFLEFKRQ 386
           +    + + A L++ ++
Sbjct: 631 EDRRDAEAFAVLQYMKE 647

Arabidopsis thaliana (taxid: 3702)

>sp|Q8S9D1|PP395_ARATH Pentatricopeptide repeat-containing protein At5g21222 OS=Arabidopsis thaliana GN=ATC401 PE=2 SV=1

 Score = 67.8 bits (164), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 68/302 (22%), Positives = 120/302 (39%), Gaps = 37/302 (12%)

Query: 35  IIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF 94
           +I    +   +   +LV  L R+K  H    L++ V+  GL PD     A++   + +G 
Sbjct: 345 LIEEGHKPSLITYTTLVTALTRQKHFHSLLSLISKVEKNGLKPDTILFNAIINASSESGN 404

Query: 95  VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE--VY 152
           + +A  ++E++  S    +    + L+  YG+IG   E   ++D +  R+  L P     
Sbjct: 405 LDQAMKIFEKMKESGCKPTASTFNTLIKGYGKIGKLEESSRLLDMM-LRDEMLQPNDRTC 463

Query: 153 SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKR 212
           +  +  +  Q ++E   N + +M S G   D  T N     Y+R GS    E     + R
Sbjct: 464 NILVQAWCNQRKIEEAWNIVYKMQSYGVKPDVVTFNTLAKAYARIGSTCTAEDMI--IPR 521

Query: 213 SRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKS 272
             H   K  +R                                    ++  Y    KM+ 
Sbjct: 522 MLHNKVKPNVRTCG--------------------------------TIVNGYCEEGKMEE 549

Query: 273 LQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVD 332
             R F RM E G HP+L  FN     F  ++    +   ++ M+   V PD+VT+  +++
Sbjct: 550 ALRFFYRMKELGVHPNLFVFNSLIKGFLNINDMDGVGEVVDLMEEFGVKPDVVTFSTLMN 609

Query: 333 AY 334
           A+
Sbjct: 610 AW 611

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SQU6|PP216_ARATH Pentatricopeptide repeat-containing protein At3g06430, chloroplastic OS=Arabidopsis thaliana GN=EMB2750 PE=2 SV=1

 Score = 66.6 bits (161), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 71/348 (20%), Positives = 146/348 (41%), Gaps = 51/348 (14%)

Query: 13  KFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCAS-LVEDLGRKKKPHLAHQLVNTVK 71
           +F     P +Q      ++ +K+ R  K  G+V+  +  + DL  KK+   A ++ + ++
Sbjct: 56  EFPGITEPVNQRRTPIKNVKKKLDRRSKANGWVNTVTETLSDLIAKKQWLQALEVFDMLR 115

Query: 72  SEGLL-PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF 130
            +    P   T   L++    +G    AQ +++E+L      +V++ + L+ AY R    
Sbjct: 116 EQTFYQPKEGTYMKLLVLLGKSGQPNRAQKLFDEMLEEGLEPTVELYTALLAAYTRSNLI 175

Query: 131 NEIISIIDQV----SCRNADLLPEV--YSRAISCFGKQGQLELMENTLKEMVSRGFSVDS 184
           ++  SI+D++     C+     P+V  YS  +       Q +L+++  KEM  R  + ++
Sbjct: 176 DDAFSILDKMKSFPQCQ-----PDVFTYSTLLKACVDASQFDLVDSLYKEMDERLITPNT 230

Query: 185 ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRD 244
            T N  +  Y R G   +ME                                +L + L  
Sbjct: 231 VTQNIVLSGYGRVGRFDQMEK-------------------------------VLSDMLVS 259

Query: 245 VGLGRKDLGNLLWNL-LLLSYAGNF-KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRM 302
               + D    +W + ++LS  GN  K+  ++  + +    G  P+  TFNI   ++ + 
Sbjct: 260 TAC-KPD----VWTMNIILSVFGNMGKIDMMESWYEKFRNFGIEPETRTFNILIGSYGKK 314

Query: 303 SMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM 350
            M+  +   +E+M+         TY  +++A+ D    +N++    +M
Sbjct: 315 RMYDKMSSVMEYMRKLEFPWTTSTYNNIIEAFADVGDAKNMELTFDQM 362

Arabidopsis thaliana (taxid: 3702)

>sp|O65567|PP342_ARATH Pentatricopeptide repeat-containing protein At4g30825, chloroplastic OS=Arabidopsis thaliana GN=At4g30825 PE=2 SV=2

 Score = 65.5 bits (158), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 55/273 (20%), Positives = 118/273 (43%), Gaps = 2/273 (0%)

Query: 63  AHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEEL-LSSSFVLSVQVLSDLM 121
           A +L   +KS G++ D      ++  Y   G + EA  V E +      V  V +  D++
Sbjct: 577 AEKLYLNLKSSGVVLDRIGFSIVVRMYVKAGSLEEACSVLEIMDEQKDIVPDVYLFRDML 636

Query: 122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS 181
             Y +    +++  +  ++         E+Y+  I+C  +   L+ +  T +EM+  GF+
Sbjct: 637 RIYQKCDLQDKLQHLYYRIRKSGIHWNQEMYNCVINCCARALPLDELSGTFEEMIRYGFT 696

Query: 182 VDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEF 241
            ++ T N  +  Y +     ++   +   KR   ++D      +   Y K + +  +   
Sbjct: 697 PNTVTFNVLLDVYGKAKLFKKVNELFLLAKR-HGVVDVISYNTIIAAYGKNKDYTNMSSA 755

Query: 242 LRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR 301
           ++++      +    +N LL +Y  + +M+  +    RM ++   PD  T+NI    +  
Sbjct: 756 IKNMQFDGFSVSLEAYNTLLDAYGKDKQMEKFRSILKRMKKSTSGPDHYTYNIMINIYGE 815

Query: 302 MSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAY 334
                ++   L+ +K   +GPDL +Y  ++ AY
Sbjct: 816 QGWIDEVADVLKELKESGLGPDLCSYNTLIKAY 848

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	412
255541504	427	pentatricopeptide repeat-containing prot	0.983	0.948	0.665	1e-162
224118746	428	predicted protein [Populus trichocarpa]	0.978	0.941	0.678	1e-162
225445658	423	PREDICTED: pentatricopeptide repeat-cont	0.987	0.962	0.676	1e-154
449470370	388	PREDICTED: pentatricopeptide repeat-cont	0.893	0.948	0.660	1e-138
75223628	419	pentatricopeptide repeat protein [Arabid	1.0	0.983	0.577	1e-138
297815394	419	pentatricopeptide repeat protein [Arabid	1.0	0.983	0.572	1e-136
42565361	415	pentatricopeptide repeat-containing prot	0.987	0.980	0.567	1e-134
75214625	424	pentatricopeptide repeat protein [Olimar	0.975	0.948	0.572	1e-133
7523388	412	putative protein [Arabidopsis thaliana]	0.987	0.987	0.569	1e-133
75214757	411	pentatricopeptide repeat protein [Capsel	0.927	0.929	0.570	1e-127

>gi|255541504|ref|XP_002511816.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223548996|gb|EEF50485.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  576 bits (1485), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 274/412 (66%), Positives = 338/412 (82%), Gaps = 7/412 (1%)

Query: 8   LHGSFKFK--RFNVPSHQTHPKNGDLARKII-RYRKQEGF----VDCASLVEDLGRKKKP 60
           L GS K K  RF + S Q  P N  LARKII ++++ + F    VDCASLV++L  K+ P
Sbjct: 16  LGGSLKRKMGRFRLFSSQRDPTNRPLARKIIYQWKQDQSFSCKEVDCASLVQNLHSKRTP 75

Query: 61  HLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDL 120
           HLA +++  +KS+G + +N TL A++LCYA+NG + +AQ +W+ +L+ SF  S+Q++S L
Sbjct: 76  HLAQEILLEMKSQGYVLNNPTLSAILLCYADNGLLPQAQAIWKHMLNGSFTPSIQIVSRL 135

Query: 121 MDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGF 180
           +DAY + G FNE+++I+DQ+S  N  LL E YS AISCFGK GQL+LMEN LK+MV RGF
Sbjct: 136 IDAYSKKGHFNEVMNILDQLSYSNFSLLHEAYSLAISCFGKGGQLQLMENALKDMVLRGF 195

Query: 181 SVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGE 240
            VD ATGNAFI YYS  GSLT+ME+AY RLKRSRHL+D+EGIRAVS  Y+KERKF+ LGE
Sbjct: 196 PVDYATGNAFIRYYSIHGSLTDMESAYSRLKRSRHLVDREGIRAVSLAYVKERKFYRLGE 255

Query: 241 FLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFS 300
           FLRDVGLGRKD+GNL+WN LLLS+A NFKMKSLQREF+RM EAGFHPD+TTFNIRA+AFS
Sbjct: 256 FLRDVGLGRKDVGNLIWNFLLLSFAANFKMKSLQREFLRMLEAGFHPDVTTFNIRALAFS 315

Query: 301 RMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVST 360
           RMS+ WDLHL+LEHMKHE V PD+VTYGC+VDAYLD+RLG+NLDF + KMNLD SPV+ T
Sbjct: 316 RMSLLWDLHLTLEHMKHEKVSPDIVTYGCIVDAYLDRRLGKNLDFAIKKMNLDGSPVLLT 375

Query: 361 DPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           DP+VFE  GKGDFHSS+EAFLEFKRQRKWTYR+L+++YL+KQ R NQIFWNY
Sbjct: 376 DPFVFEVLGKGDFHSSAEAFLEFKRQRKWTYRELVSIYLRKQYRSNQIFWNY 427

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118746|ref|XP_002331436.1| predicted protein [Populus trichocarpa] gi|222873650|gb|EEF10781.1| predicted protein [Populus trichocarpa]

 Score =  575 bits (1483), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 279/411 (67%), Positives = 338/411 (82%), Gaps = 8/411 (1%)

Query: 10  GSFKFKRFNVPSHQTHPKNGDLARKIIRYRK-------QEGFVDCASLVEDLGRKKKPHL 62
           GS+K KRF + S +  PK   LA+K+IR  K       +E   DCASL++ L + ++PHL
Sbjct: 18  GSYKPKRFAIFSIKRDPKKRALAQKMIRQWKRDQGVFGKETCADCASLIQTLCKHRRPHL 77

Query: 63  AHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD 122
           A +L+  +K EG LPDN TL A+MLCYA++G + +AQ +WEE+L SSFV SVQV+SDL+D
Sbjct: 78  AEELLLELKCEGFLPDNRTLSAMMLCYADSGLLPQAQAIWEEMLYSSFVPSVQVISDLID 137

Query: 123 AYGRIGCFNEIISIIDQVSC-RNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS 181
            Y + G F+E+I I+DQ+S  R  D LP+VYS AISCFGK GQLELME+TLK+MVS+GF 
Sbjct: 138 IYAKSGLFDEVIKILDQLSSLRTFDFLPQVYSLAISCFGKGGQLELMEDTLKKMVSKGFW 197

Query: 182 VDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEF 241
           VDSATGNAF++YYS  GSL EME AY RLKRSR LI++EGIRA+SF Y+KERKF+ L EF
Sbjct: 198 VDSATGNAFVVYYSLHGSLAEMEAAYDRLKRSRLLIEREGIRAMSFAYIKERKFYGLSEF 257

Query: 242 LRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR 301
           LRDVGLGRK+LGNL+WNLLLLSY+ NFKMK+LQREF+ M EAGFHPDLTTFNIRA+AFSR
Sbjct: 258 LRDVGLGRKNLGNLIWNLLLLSYSANFKMKTLQREFLNMLEAGFHPDLTTFNIRALAFSR 317

Query: 302 MSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTD 361
           MS+ WDLHL LEHMKH+ V PDLVTYGC+VDAYLD+RL RNL+F LSKM++D+SPV+STD
Sbjct: 318 MSLLWDLHLGLEHMKHDKVAPDLVTYGCIVDAYLDRRLVRNLEFALSKMHVDNSPVLSTD 377

Query: 362 PYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           P+VFE FGKGDFHSSSEAF+EFKRQRKWTYR+LI +YL+KQ R   IFWNY
Sbjct: 378 PFVFEVFGKGDFHSSSEAFMEFKRQRKWTYRELIKIYLRKQHRSKHIFWNY 428

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445658|ref|XP_002265876.1| PREDICTED: pentatricopeptide repeat-containing protein At3g42630 [Vitis vinifera] gi|297736023|emb|CBI24061.3| unnamed protein product [Vitis vinifera]

 Score =  552 bits (1423), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 280/414 (67%), Positives = 334/414 (80%), Gaps = 7/414 (1%)

Query: 6   LSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQE-------GFVDCASLVEDLGRKK 58
           L L GS K +RF V  HQ +  N  LARK+  + KQE        +VD   L++ L RK+
Sbjct: 10  LCLIGSHKTQRFRVSLHQNYSPNRALARKLFWHWKQERSVDGKDNYVDYTPLIQALSRKR 69

Query: 59  KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLS 118
            PH+A +L+  +KSEG LP+NSTL ALMLCYA+NG   +AQ +W+E+++SSF  ++Q++S
Sbjct: 70  LPHVAQELLFEMKSEGFLPNNSTLSALMLCYADNGLFPKAQALWDEIINSSFGPNIQIVS 129

Query: 119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR 178
            L+DAYG++G F E+  I+ QVS R+ + + EVYS AISCFGK GQLE+MEN LKEMVSR
Sbjct: 130 KLIDAYGKMGHFGEVTRILHQVSSRDFNFMHEVYSLAISCFGKGGQLEMMENALKEMVSR 189

Query: 179 GFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML 238
           GF VDSATGNAFI YYS FGSLTEME AY RLK+SR LI++EGIRA+SF Y+KE+K++ L
Sbjct: 190 GFPVDSATGNAFIRYYSIFGSLTEMEAAYDRLKKSRILIEEEGIRAMSFAYIKEKKYYRL 249

Query: 239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVA 298
           G+FLRDVGLGRK++GNLLWNLLLLSYA NFKMKSLQREF+ M EAGF PDLTTFNIRA+A
Sbjct: 250 GQFLRDVGLGRKNVGNLLWNLLLLSYAANFKMKSLQREFLEMVEAGFAPDLTTFNIRALA 309

Query: 299 FSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVV 358
           FSRMS+FWDLHLSLEHM+H  V  DLVTYGCVVDAYLD+RLG+NLDF L KMN+DDSP+V
Sbjct: 310 FSRMSLFWDLHLSLEHMQHVKVVADLVTYGCVVDAYLDRRLGKNLDFALKKMNMDDSPLV 369

Query: 359 STDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           STD +VFE  GKGDFHSSSEAFLE KR  KWTYRKLIA YLKK+ R NQIFWNY
Sbjct: 370 STDHFVFEVLGKGDFHSSSEAFLESKRNGKWTYRKLIATYLKKKYRSNQIFWNY 423

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449470370|ref|XP_004152890.1| PREDICTED: pentatricopeptide repeat-containing protein At3g42630-like [Cucumis sativus] gi|449507537|ref|XP_004163059.1| PREDICTED: pentatricopeptide repeat-containing protein At3g42630-like [Cucumis sativus]

 Score =  498 bits (1283), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 243/368 (66%), Positives = 307/368 (83%)

Query: 45  VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEE 104
           ++ + +++ L R++ P LA ++   +KSEG   +NSTL  +M+ Y ++G  L+AQ +WEE
Sbjct: 21  INNSQVIKKLSRRRMPILAKEIFLELKSEGFPLNNSTLSTIMVHYIDDGSPLQAQAMWEE 80

Query: 105 LLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ 164
           +L+S F  SVQV+S L +AYG++G F+ I  ++DQV  R + LLPE YS AISCFGK  Q
Sbjct: 81  MLNSCFEPSVQVISKLFNAYGKMGHFDYITKVLDQVKLRYSHLLPEAYSLAISCFGKHKQ 140

Query: 165 LELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRA 224
           LELME+TL+EMVS GF+V+SATGN+FIIYYS FGSL EMETAYGRLKRSR LI+K+GI A
Sbjct: 141 LELMESTLREMVSSGFTVNSATGNSFIIYYSMFGSLVEMETAYGRLKRSRFLIEKKGIMA 200

Query: 225 VSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG 284
           ++F Y+++RKF+ LGEFLRDVGLGRK++GNLLWNLLLLSYA NFKMKSLQREF++M +AG
Sbjct: 201 MAFAYIRKRKFYRLGEFLRDVGLGRKNVGNLLWNLLLLSYAANFKMKSLQREFLQMVDAG 260

Query: 285 FHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLD 344
           F+PDLTTFNIRA+AFSRM + WDLHLSLEHMKH ++ PDLVTYGCVVDAY+D+RLGRNL+
Sbjct: 261 FNPDLTTFNIRALAFSRMDLLWDLHLSLEHMKHMNIEPDLVTYGCVVDAYVDRRLGRNLE 320

Query: 345 FGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLR 404
           F LSKMN D  PV  TD +VFEA GKGDFH SSEAF++F++Q+KWTYR+LI++YLKK  R
Sbjct: 321 FILSKMNPDQPPVSLTDSFVFEALGKGDFHMSSEAFMQFRKQKKWTYRELISLYLKKHHR 380

Query: 405 RNQIFWNY 412
           RNQ+FWNY
Sbjct: 381 RNQVFWNY 388

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|75223628|gb|ABA18111.1| pentatricopeptide repeat protein [Arabidopsis arenosa]

 Score =  496 bits (1277), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 242/419 (57%), Positives = 313/419 (74%), Gaps = 7/419 (1%)

Query: 1   METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIR-------YRKQEGFVDCASLVED 53
           M + +LS H S K +   + S  T      +ARK+I+       + ++   VD A LV+ 
Sbjct: 1   MFSLNLSHHLSLKPQHLKLLSCYTDSSAPSIARKLIKESKLSREFSRKIQIVDYAPLVQT 60

Query: 54  LGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS 113
           L +++ P +AH++    KS  LLP+  TLCALMLC+A NGFVL A+ +W+E+L+SSFV  
Sbjct: 61  LSQRRLPDVAHEIFIQTKSVNLLPNYRTLCALMLCFAENGFVLRARTIWDEILNSSFVPD 120

Query: 114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLK 173
           V V+S L+ AY ++G F+E+  I   V+ R++ LLP VYS AISCFGK GQLELME  ++
Sbjct: 121 VFVVSKLISAYEQLGFFDEVAKITKDVAARHSTLLPVVYSLAISCFGKNGQLELMEGVIE 180

Query: 174 EMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKER 233
           EM S+G S+DSAT NA + Y+S FG+L ++E AYGRLK+   +I++E IRAV   YLK+R
Sbjct: 181 EMDSKGMSLDSATANAIVRYFSFFGTLDKIEHAYGRLKKFGIVIEEEEIRAVLLAYLKQR 240

Query: 234 KFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFN 293
           KF+ L EFL DVGLGR++LGN+LWN +LLSYA  FKMKSLQREF+ M +AGF PDLTTFN
Sbjct: 241 KFYRLREFLSDVGLGRRNLGNMLWNSVLLSYAAEFKMKSLQREFIEMLDAGFSPDLTTFN 300

Query: 294 IRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLD 353
           IRA+AFSRM++FWDLHL+LEHM+  ++ PDLVT+GCVVDAY+DKRL RNL+F  ++MNLD
Sbjct: 301 IRALAFSRMALFWDLHLTLEHMRRLNIVPDLVTFGCVVDAYMDKRLARNLEFVYNQMNLD 360

Query: 354 DSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           DSPVV TDP  FE  GKGDFH SSEA LEF  ++ WTYRKLI VY+KK+LRR+QIFWNY
Sbjct: 361 DSPVVLTDPLAFEVLGKGDFHLSSEAVLEFSTEKNWTYRKLIGVYVKKKLRRDQIFWNY 419

Source: Arabidopsis arenosa

Species: Arabidopsis arenosa

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297815394|ref|XP_002875580.1| pentatricopeptide repeat protein [Arabidopsis lyrata subsp. lyrata] gi|297321418|gb|EFH51839.1| pentatricopeptide repeat protein [Arabidopsis lyrata subsp. lyrata]

 Score =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 240/419 (57%), Positives = 312/419 (74%), Gaps = 7/419 (1%)

Query: 1   METFSLSLHGSFKFKRFNVPSHQTHPKNGDLARKIIR-------YRKQEGFVDCASLVED 53
           M + +LS   S K +   + S  T      +ARK+I+       + ++   VD A LV+ 
Sbjct: 1   MFSLNLSHPQSLKPQHLKLLSCYTDLSAPSIARKLIKESKLSRDFSRKIQIVDYAPLVQT 60

Query: 54  LGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS 113
           L +++ P +AH++    KS  LLP+  TLCAL LC+A NGFVL A+++W+ +L+SSFV  
Sbjct: 61  LSQRRLPDVAHEIFIQTKSVNLLPNYRTLCALTLCFAENGFVLRARMIWDGILNSSFVPD 120

Query: 114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLK 173
           V V+S LM AY ++GCF+E+  I   V+ R++ LLP VYS AISCFGK GQLELME  ++
Sbjct: 121 VFVVSKLMSAYEQVGCFDEVAKITKDVAARHSKLLPVVYSVAISCFGKNGQLELMEGVIE 180

Query: 174 EMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKER 233
           EM  +G S+DSAT NA + Y+S FG+L ++E AYGRLK+   +I++E IRAV   YLK+R
Sbjct: 181 EMDLKGISLDSATANAIVRYFSFFGTLDKLEQAYGRLKKFGIVIEEEEIRAVLLAYLKQR 240

Query: 234 KFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFN 293
           KF+ L EFL DVGLGR++LGN+LWN +LLSYA +FKMKSLQREF+ M +AGF PDLTTFN
Sbjct: 241 KFYRLREFLSDVGLGRRNLGNMLWNSVLLSYAADFKMKSLQREFIGMLDAGFSPDLTTFN 300

Query: 294 IRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLD 353
           IRA+AFSRM++FWD+HL+LEHM+  ++ PDLVT+GCVVDAY+DKRL RNL+F  ++MNLD
Sbjct: 301 IRALAFSRMALFWDIHLTLEHMRRLNIVPDLVTFGCVVDAYMDKRLARNLEFVYNQMNLD 360

Query: 354 DSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           DSPVV TDP  FE  GKGDFH SSEA LEF  ++ WTYRKLI VYLKK+LRR+QIFWNY
Sbjct: 361 DSPVVLTDPLAFEVLGKGDFHLSSEAVLEFSPRKNWTYRKLIGVYLKKKLRRDQIFWNY 419

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42565361|ref|NP_566863.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|218546757|sp|Q9M2A1.2|PP263_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At3g42630 gi|332644221|gb|AEE77742.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  483 bits (1244), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 235/414 (56%), Positives = 307/414 (74%), Gaps = 7/414 (1%)

Query: 6   LSLHGSFKFKRFNVPSHQTHPKNGDLARKIIR-------YRKQEGFVDCASLVEDLGRKK 58
           LSL+ S K +   + S  T      +A+K+I+       + ++   VD A LV+ L +++
Sbjct: 2   LSLNLSLKPQHLKLLSCYTDSSAPSIAKKLIKESKLSRDFSQKIQIVDYAPLVQTLSQRR 61

Query: 59  KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLS 118
            P +AH++    KS  LLP+  TLCALMLC+A NGFVL A+ +W+E+++S FV  V V+S
Sbjct: 62  LPDVAHEIFLQTKSVNLLPNYRTLCALMLCFAENGFVLRARTIWDEIINSCFVPDVFVVS 121

Query: 119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR 178
            L+ AY + GCF+E+  I   V+ R++ LLP V S AISCFGK GQLELME  ++EM S+
Sbjct: 122 KLISAYEQFGCFDEVAKITKDVAARHSKLLPVVSSLAISCFGKNGQLELMEGVIEEMDSK 181

Query: 179 GFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML 238
           G  +++ T N  + YYS FGSL +ME AYGR+K+   +I++E IRAV   YLK+RKF+ L
Sbjct: 182 GVLLEAETANVIVRYYSFFGSLDKMEKAYGRVKKFGIVIEEEEIRAVVLAYLKQRKFYRL 241

Query: 239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVA 298
            EFL DVGLGR++LGN+LWN +LLSYA +FKMKSLQREF+ M +AGF PDLTTFNIRA+A
Sbjct: 242 REFLSDVGLGRRNLGNMLWNSVLLSYAADFKMKSLQREFIGMLDAGFSPDLTTFNIRALA 301

Query: 299 FSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVV 358
           FSRM++FWDLHL+LEHM+  ++ PDLVT+GCVVDAY+DKRL RNL+F  ++MNLDDSP+V
Sbjct: 302 FSRMALFWDLHLTLEHMRRLNIVPDLVTFGCVVDAYMDKRLARNLEFVYNRMNLDDSPLV 361

Query: 359 STDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
            TDP  FE  GKGDFH SSEA LEF  ++ WTYRKLI VYLKK+LRR+QIFWNY
Sbjct: 362 LTDPLAFEVLGKGDFHLSSEAVLEFSPRKNWTYRKLIGVYLKKKLRRDQIFWNY 415

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|75214625|gb|ABA18097.1| pentatricopeptide repeat protein [Olimarabidopsis pumila]

 Score =  482 bits (1240), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 234/409 (57%), Positives = 305/409 (74%), Gaps = 7/409 (1%)

Query: 11  SFKFKRFNVPSHQTHPKNGDLARKIIR-------YRKQEGFVDCASLVEDLGRKKKPHLA 63
           S K +   + S  T      +ARK+I+       + ++   VD ASLV+ L +++ P +A
Sbjct: 16  SLKPQNLKLLSCYTDSSTPSIARKLIKDSKLCRVFSRKIQIVDYASLVQTLSQRRLPEVA 75

Query: 64  HQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA 123
           +++    K + LLP+  TLCALMLC+A NGFVL A+++W+E+L+SSFV  + V+S L+ A
Sbjct: 76  YEIFIQTKLDNLLPNYRTLCALMLCFAENGFVLRARMIWDEMLNSSFVPDLLVISKLVFA 135

Query: 124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD 183
           Y ++GCF+E++ II  V  R + LLP VYS  ISCFG+ GQ ELME  ++E+  RG  +D
Sbjct: 136 YEKVGCFDEVVKIIKDVDQRYSKLLPVVYSLGISCFGENGQFELMEGIIEELDLRGMLLD 195

Query: 184 SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLR 243
           S T NA + YYS  G+L +ME AYGRL++   +I++E IRAV   YLK+RKF+ L EFL 
Sbjct: 196 SVTANAIVRYYSSSGNLEKMEKAYGRLRKFGVVIEEEEIRAVLLAYLKQRKFYRLREFLS 255

Query: 244 DVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMS 303
           DVGL R++LGNLLWN +LLSYA +FKMKSLQREF+ M +AGF PDLTTFNIRA+AFSRM+
Sbjct: 256 DVGLCRRNLGNLLWNSVLLSYAADFKMKSLQREFIGMLDAGFSPDLTTFNIRALAFSRMA 315

Query: 304 MFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPY 363
           +FWDLHL+LEHM+  ++ PDLVT+GCVVDAY+D+RL RNL+F  ++MNLDDSPVV TDP 
Sbjct: 316 LFWDLHLTLEHMRRLNIVPDLVTFGCVVDAYMDRRLARNLEFVYNRMNLDDSPVVLTDPL 375

Query: 364 VFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           VFE  GKGDFH SSEA LEF  + KWTYRKLI VYLKK+LRR+QIFWNY
Sbjct: 376 VFEVLGKGDFHLSSEAVLEFSPREKWTYRKLIGVYLKKKLRRDQIFWNY 424

Source: Olimarabidopsis pumila

Species: Olimarabidopsis pumila

Genus: Olimarabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7523388|emb|CAB86446.1| putative protein [Arabidopsis thaliana]

 Score =  480 bits (1235), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 234/411 (56%), Positives = 305/411 (74%), Gaps = 4/411 (0%)

Query: 6   LSLHGSFKFKRFNVPSHQTHPKNGDLARKIIR----YRKQEGFVDCASLVEDLGRKKKPH 61
           LSL+ S K +   + S  T      +A+K  +    + ++   VD A LV+ L +++ P 
Sbjct: 2   LSLNLSLKPQHLKLLSCYTDSSAPSIAKKESKLSRDFSQKIQIVDYAPLVQTLSQRRLPD 61

Query: 62  LAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM 121
           +AH++    KS  LLP+  TLCALMLC+A NGFVL A+ +W+E+++S FV  V V+S L+
Sbjct: 62  VAHEIFLQTKSVNLLPNYRTLCALMLCFAENGFVLRARTIWDEIINSCFVPDVFVVSKLI 121

Query: 122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS 181
            AY + GCF+E+  I   V+ R++ LLP V S AISCFGK GQLELME  ++EM S+G  
Sbjct: 122 SAYEQFGCFDEVAKITKDVAARHSKLLPVVSSLAISCFGKNGQLELMEGVIEEMDSKGVL 181

Query: 182 VDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEF 241
           +++ T N  + YYS FGSL +ME AYGR+K+   +I++E IRAV   YLK+RKF+ L EF
Sbjct: 182 LEAETANVIVRYYSFFGSLDKMEKAYGRVKKFGIVIEEEEIRAVVLAYLKQRKFYRLREF 241

Query: 242 LRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR 301
           L DVGLGR++LGN+LWN +LLSYA +FKMKSLQREF+ M +AGF PDLTTFNIRA+AFSR
Sbjct: 242 LSDVGLGRRNLGNMLWNSVLLSYAADFKMKSLQREFIGMLDAGFSPDLTTFNIRALAFSR 301

Query: 302 MSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTD 361
           M++FWDLHL+LEHM+  ++ PDLVT+GCVVDAY+DKRL RNL+F  ++MNLDDSP+V TD
Sbjct: 302 MALFWDLHLTLEHMRRLNIVPDLVTFGCVVDAYMDKRLARNLEFVYNRMNLDDSPLVLTD 361

Query: 362 PYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
           P  FE  GKGDFH SSEA LEF  ++ WTYRKLI VYLKK+LRR+QIFWNY
Sbjct: 362 PLAFEVLGKGDFHLSSEAVLEFSPRKNWTYRKLIGVYLKKKLRRDQIFWNY 412

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|75214757|gb|ABA18107.1| pentatricopeptide repeat protein [Capsella rubella]

 Score =  461 bits (1185), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 222/389 (57%), Positives = 290/389 (74%), Gaps = 7/389 (1%)

Query: 31  LARKIIR-------YRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLC 83
           +ARK+I+       + ++   VD A LV++L ++  P +A+++    KS+ LLP+  TLC
Sbjct: 23  IARKLIKESKLSRVFSRKIQSVDYAPLVQNLSQRTLPDVAYEIFIQSKSDNLLPNYRTLC 82

Query: 84  ALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR 143
           ALMLC+A NGFV  A+ +W+E+L+SS    +  +S L+ AY ++G  +E+  II  V  R
Sbjct: 83  ALMLCFAENGFVNRARTIWDEMLNSSLEPDLIFISKLISAYVKVGSLDEVAKIIKDVEAR 142

Query: 144 NADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEM 203
            + LLP VYS A+SCFG+ GQ ELM+  ++E+  RG  +DSAT NA + +YS FG+L +M
Sbjct: 143 YSKLLPSVYSLAVSCFGENGQFELMDGIIEELDIRGMPLDSATANAIVRHYSSFGTLDKM 202

Query: 204 ETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLS 263
           E AYGRL++   +I+ E IRAV   YLK RKF+ L EFL DVGL R++LGNLLWN +LLS
Sbjct: 203 EHAYGRLRKFGIVIEDEEIRAVLLAYLKLRKFYRLREFLSDVGLCRRNLGNLLWNSVLLS 262

Query: 264 YAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPD 323
           YA +FKMKSLQREF+ M +AGF PDLTTFNIRA+AFSRM++FWDLHL+LEHM+  ++ PD
Sbjct: 263 YAADFKMKSLQREFIGMLDAGFSPDLTTFNIRALAFSRMALFWDLHLTLEHMRRLNIVPD 322

Query: 324 LVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEF 383
           LVT+GCVVDAY+D+RL RNL+F  ++MNLDDSP V TDP  FE  GKGDFH SSEA LEF
Sbjct: 323 LVTFGCVVDAYMDRRLARNLEFVYNRMNLDDSPAVLTDPLAFEVLGKGDFHLSSEAVLEF 382

Query: 384 KRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
             + KWTYRKLI VYLKK+LRR+QIFWNY
Sbjct: 383 SPRTKWTYRKLIGVYLKKKLRRDQIFWNY 411

Source: Capsella rubella

Species: Capsella rubella

Genus: Capsella

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	412
TAIR|locus:2096544	415	AT3G42630 [Arabidopsis thalian	0.987	0.980	0.531	4.3e-109
TAIR|locus:2129475	501	AT4G14190 "AT4G14190" [Arabido	0.786	0.646	0.256	5.9e-18
TAIR|locus:2151281	819	AT5G02860 [Arabidopsis thalian	0.638	0.321	0.234	1.8e-07
TAIR|locus:2157607	709	AT5G42310 [Arabidopsis thalian	0.825	0.479	0.196	2.5e-07
TAIR|locus:505006535	904	AT4G30825 "AT4G30825" [Arabido	0.444	0.202	0.198	3.4e-06
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.550	0.204	0.261	3.4e-06
TAIR|locus:2039558	799	AT2G26790 [Arabidopsis thalian	0.160	0.082	0.333	4.2e-06
TAIR|locus:2027166	862	PTAC2 "plastid transcriptional	0.628	0.300	0.200	6.8e-06
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.686	0.370	0.214	7.5e-06
TAIR|locus:2081041	486	PPR2 "pentatricopeptide repeat	0.783	0.664	0.205	1.1e-05

TAIR|locus:2096544 AT3G42630 [Arabidopsis thaliana (taxid:3702)]

 Score = 1078 (384.5 bits), Expect = 4.3e-109, P = 4.3e-109
 Identities = 220/414 (53%), Positives = 281/414 (67%)

Query:     6 LSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRK-QEGF------VDCASLVEDLGRKK 58
             LSL+ S K +   + S  T      +A+K+I+  K    F      VD A LV+ L +++
Sbjct:     2 LSLNLSLKPQHLKLLSCYTDSSAPSIAKKLIKESKLSRDFSQKIQIVDYAPLVQTLSQRR 61

Query:    59 KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQXXXXXXXXXXXXXXXXXXX 118
              P +AH++    KS  LLP+  TLCALMLC+A NGFVL A+                   
Sbjct:    62 LPDVAHEIFLQTKSVNLLPNYRTLCALMLCFAENGFVLRARTIWDEIINSCFVPDVFVVS 121

Query:   119 XXMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR 178
               + AY + GCF+E+  I   V+ R++ LLP V S AISCFGK GQLELME  ++EM S+
Sbjct:   122 KLISAYEQFGCFDEVAKITKDVAARHSKLLPVVSSLAISCFGKNGQLELMEGVIEEMDSK 181

Query:   179 GFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML 238
             G  +++ T N  + YYS FGSL +ME AYGR+K+   +I++E IRAV   YLK+RKF+ L
Sbjct:   182 GVLLEAETANVIVRYYSFFGSLDKMEKAYGRVKKFGIVIEEEEIRAVVLAYLKQRKFYRL 241

Query:   239 GEFLRDVGLGRKDXXXXXXXXXXXSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVA 298
              EFL DVGLGR++           SYA +FKMKSLQREF+ M +AGF PDLTTFNIRA+A
Sbjct:   242 REFLSDVGLGRRNLGNMLWNSVLLSYAADFKMKSLQREFIGMLDAGFSPDLTTFNIRALA 301

Query:   299 FSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVV 358
             FSRM++FWDLHL+LEHM+  ++ PDLVT+GCVVDAY+DKRL RNL+F  ++MNLDDSP+V
Sbjct:   302 FSRMALFWDLHLTLEHMRRLNIVPDLVTFGCVVDAYMDKRLARNLEFVYNRMNLDDSPLV 361

Query:   359 STDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLRRNQIFWNY 412
              TDP  FE  GKGDFH SSEA LEF  ++ WTYRKLI VYLKK+LRR+QIFWNY
Sbjct:   362 LTDPLAFEVLGKGDFHLSSEAVLEFSPRKNWTYRKLIGVYLKKKLRRDQIFWNY 415

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2129475 AT4G14190 "AT4G14190" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 5.9e-18, P = 5.9e-18
 Identities = 87/339 (25%), Positives = 144/339 (42%)

Query:    75 LLPDNSTLCALMLCYANNGFVLEAQXXXXXXXXXXXXXXXXXXXXXMDAYGRIGCFNEII 134
             L P      +++  YA++G   EA                      ++AYG+   ++EI+
Sbjct:   163 LSPSLEIYNSIIHSYADDGKFEEAMFYLNHMKENGLLPITETYDGLIEAYGKWKMYDEIV 222

Query:   135 SIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY 194
               + ++           Y+  I  F + G L+ ME   + ++SR  +++ +T  + +  Y
Sbjct:   223 LCLKRMESDGCVRDHVTYNLLIREFSRGGLLKRMEQMYQSLMSRKMTLEPSTLLSMLEAY 282

Query:   195 SRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDXXX 254
             + FG + +ME    ++ R    +D+  +R ++  Y++   F  L +  R +   R     
Sbjct:   283 AEFGLIEKMEETCNKIIRFGISLDEGLVRKLANVYIENLMFSRLDDLGRGISASRTRRTE 342

Query:   255 XXXXXXXXSYAGNFKMKSLQREFMRMSEAGFHPDLTTF-NIRAVAFSRMSMFWDLHLSLE 313
                      +A     K L      M EA   P  TTF NI  +A+S+M  F  + L L 
Sbjct:   343 LAWCLRLLCHARLVSRKGLDYVVKEMEEARV-PWNTTFANIALLAYSKMGDFTSIELLLS 401

Query:   314 HMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPV-VSTDPYVFEAFGKGD 372
              ++ + V  DLVT G V D    +  G  +     K+   D PV + TDP V  AFGKG 
Sbjct:   402 ELRIKHVKLDLVTVGIVFDLSEARFDGTGVFMTWKKIGFLDKPVEMKTDPLVHAAFGKGQ 461

Query:   373 FHSSSEAFLEFKRQ---------RKWTYRKLIAVYLKKQ 402
             F  S E   E K Q         + WTY+ L+ + +K Q
Sbjct:   462 FLRSCE---EVKNQSLGTRDGESKSWTYQYLMELVVKNQ 497

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2151281 AT5G02860 [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 1.8e-07, P = 1.8e-07
 Identities = 64/273 (23%), Positives = 98/273 (35%)

Query:    66 LVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQXXXXXXXXXXXXXXXXXXXXXMDAYG 125
             LV  +KS+G+ PD  T   L+ C        EA                      +D YG
Sbjct:   266 LVEKMKSDGIAPDAYTYNTLITCCKRGSLHQEAAQVFEEMKAAGFSYDKVTYNALLDVYG 325

Query:   126 RIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQL-ELMENTLK-EMVSRGFSVD 183
             +     E + +++++           Y+  IS + + G L E ME  LK +M  +G   D
Sbjct:   326 KSHRPKEAMKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAME--LKNQMAEKGTKPD 383

Query:   184 SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGI---RAVSFTYLKERKFFMLGE 240
               T    +  + R G   ++E+A    +  R+   K  I    A    Y    KF  + +
Sbjct:   384 VFTYTTLLSGFERAG---KVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRGKFTEMMK 440

Query:   241 FLRDVGLGRKDXXXXXXXXXXXSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFS 300
                ++ +                +  N     +   F  M  AGF P+  TFN    A+S
Sbjct:   441 IFDEINVCGLSPDIVTWNTLLAVFGQNGMDSEVSGVFKEMKRAGFVPERETFNTLISAYS 500

Query:   301 RMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDA 333
             R   F         M    V PDL TY  V+ A
Sbjct:   501 RCGSFEQAMTVYRRMLDAGVTPDLSTYNTVLAA 533

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2157607 AT5G42310 [Arabidopsis thaliana (taxid:3702)]

 Score = 150 (57.9 bits), Expect = 2.5e-07, P = 2.5e-07
 Identities = 69/352 (19%), Positives = 124/352 (35%)

Query:    40 KQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQ 99
             K    V   S + D GR  +   A  L   ++  G+ P      AL+  Y   G + +A+
Sbjct:   303 KTATLVSIISALADSGRTLE---AEALFEELRQSGIKPRTRAYNALLKGYVKTGPLKDAE 359

Query:   100 XXXXXXXXXXXXXXXXXXXXXMDAYGRIGCFNEIISIIDQVSCRNADLLPE--VYSRAIS 157
                                  +DAY   G +     ++ ++     D+ P   V+SR ++
Sbjct:   360 SMVSEMEKRGVSPDEHTYSLLIDAYVNAGRWESARIVLKEMEA--GDVQPNSFVFSRLLA 417

Query:   158 CFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLI 217
              F  +G+ +     LKEM S G   D    N  I  + +F  L    T + R+       
Sbjct:   418 GFRDRGEWQKTFQVLKEMKSIGVKPDRQFYNVVIDTFGKFNCLDHAMTTFDRMLSEGIEP 477

Query:   218 DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDXX--XXXXXXXXXSYAGNFKMKSLQR 275
             D+     +   + K  +  +  E      + R+              SY    +   ++R
Sbjct:   478 DRVTWNTLIDCHCKHGRHIVAEEMFE--AMERRGCLPCATTYNIMINSYGDQERWDDMKR 535

Query:   276 EFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYL 335
                +M   G  P++ T       + +   F D    LE MK   + P    Y  +++AY 
Sbjct:   536 LLGKMKSQGILPNVVTHTTLVDVYGKSGRFNDAIECLEEMKSVGLKPSSTMYNALINAYA 595

Query:   336 DKRLGRNLDFGLSKMNLDD-SPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQ 386
              + L          M  D   P +     +  AFG+    + + A L++ ++
Sbjct:   596 QRGLSEQAVNAFRVMTSDGLKPSLLALNSLINAFGEDRRDAEAFAVLQYMKE 647

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:505006535 AT4G30825 "AT4G30825" [Arabidopsis thaliana (taxid:3702)]

 Score = 141 (54.7 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 37/186 (19%), Positives = 80/186 (43%)

Query:   150 EVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGR 209
             E+Y+  I+C  +   L+ +  T +EM+  GF+ ++ T N  +  Y +     ++   +  
Sbjct:   665 EMYNCVINCCARALPLDELSGTFEEMIRYGFTPNTVTFNVLLDVYGKAKLFKKVNELF-- 722

Query:   210 LKRSRH-LIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDXXXXXXXXXXXSYAGNF 268
             L   RH ++D      +   Y K + +  +   ++++                 +Y  + 
Sbjct:   723 LLAKRHGVVDVISYNTIIAAYGKNKDYTNMSSAIKNMQFDGFSVSLEAYNTLLDAYGKDK 782

Query:   269 KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYG 328
             +M+  +    RM ++   PD  T+NI    +       ++   L+ +K   +GPDL +Y 
Sbjct:   783 QMEKFRSILKRMKKSTSGPDHYTYNIMINIYGEQGWIDEVADVLKELKESGLGPDLCSYN 842

Query:   329 CVVDAY 334
              ++ AY
Sbjct:   843 TLIKAY 848

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2116772 PGR3 "AT4G31850" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 64/245 (26%), Positives = 104/245 (42%)

Query:   150 EVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGR 209
             + YS  +   GK+  ++ +   LKEM + G   +  T    I    R G + E   AY  
Sbjct:   224 QTYSSLMVGLGKRRDIDSVMGLLKEMETLGLKPNVYTFTICIRVLGRAGKINE---AYEI 280

Query:   210 LKRSRHLIDKEGIR--AVSFTYLKE-----RKFFMLGEFLRDVGLGRKDXXXXXXXXXXX 262
             LKR    +D EG     V++T L +     RK     E    +  GR             
Sbjct:   281 LKR----MDDEGCGPDVVTYTVLIDALCTARKLDCAKEVFEKMKTGRHKPDRVTYITLLD 336

Query:   263 SYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP 322
              ++ N  + S+++ +  M + G  PD+ TF I   A  +   F +   +L+ M+ + + P
Sbjct:   337 RFSDNRDLDSVKQFWSEMEKDGHVPDVVTFTILVDALCKAGNFGEAFDTLDVMRDQGILP 396

Query:   323 DLVTYGCVVDAYLD-KRLGRNLD-FGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEA 379
             +L TY  ++   L   RL   L+ FG +  +L   P   T     + +GK GD  S+ E 
Sbjct:   397 NLHTYNTLICGLLRVHRLDDALELFG-NMESLGVKPTAYTYIVFIDYYGKSGDSVSALET 455

Query:   380 FLEFK 384
             F + K
Sbjct:   456 FEKMK 460

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2039558 AT2G26790 [Arabidopsis thaliana (taxid:3702)]

 Score = 95 (38.5 bits), Expect = 4.2e-06, Sum P(2) = 4.2e-06
 Identities = 22/66 (33%), Positives = 32/66 (48%)

Query:   270 MKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGC 329
             ++  Q  F  M E G  PDL T+ I    + R++         E MK   + PD+VTY  
Sbjct:   607 VREAQVLFDTMVERGLIPDLFTYTIMIHTYCRLNELQKAESLFEDMKQRGIKPDVVTYTV 666

Query:   330 VVDAYL 335
             ++D YL
Sbjct:   667 LLDRYL 672

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2027166 PTAC2 "plastid transcriptionally active 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 6.8e-06, P = 6.8e-06
 Identities = 54/269 (20%), Positives = 108/269 (40%)

Query:   121 MDAYGRIGCFNEIISIIDQVSCRNADLLPEV--YSRAISCFGKQG-QLELMENTLKEMVS 177
             ++AYGR G +   + ++D++  +N  + P +  Y+  I+   + G   E +     EM  
Sbjct:   183 INAYGRNGRYETSLELLDRM--KNEKISPSILTYNTVINACARGGLDWEGLLGLFAEMRH 240

Query:   178 RGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFM 237
              G   D  T N  +   +  G   E E  +  +     + D      +  T+ K R+   
Sbjct:   241 EGIQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEK 300

Query:   238 LGEFLRDVGLGRKDXXXXXXXXXXXSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAV 297
             + + L ++  G              +YA +  +K     F +M  AG  P+  T+++   
Sbjct:   301 VCDLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLN 360

Query:   298 AFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRN---LDFGLSKMNLDD 354
              F +   + D+      MK  +  PD  TY  +++ + +    +    L   + + N++ 
Sbjct:   361 LFGQSGRYDDVRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIE- 419

Query:   355 SPVVSTDPYVFEAFGKGDFHSSSEAFLEF 383
              P + T   +  A GKG  H  +   L++
Sbjct:   420 -PDMETYEGIIFACGKGGLHEDARKILQY 447

GO:0009507 "chloroplast" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0042793 "transcription from plastid promoter" evidence=RCA;IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA;IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 7.5e-06, P = 7.5e-06
 Identities = 62/289 (21%), Positives = 105/289 (36%)

Query:    49 SLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQXXXXXXXXX 108
             +L+  L +  K   A   +  + +EGL PD+ T   L+  Y   G V  A+         
Sbjct:   291 NLIYGLCKNSKFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFN 350

Query:   109 XXXXXXXXXXXXMDAYGRIGCFNEIISIIDQVSCRNADLLPEV--YSRAISCFGKQGQLE 166
                         +D     G  N  +++ ++   +   + P V  Y+  I     QG + 
Sbjct:   351 GFVPDQFTYRSLIDGLCHEGETNRALALFNEALGKG--IKPNVILYNTLIKGLSNQGMIL 408

Query:   167 LMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVS 226
                    EM  +G   +  T N  +    + G +++ +     +    +  D      + 
Sbjct:   409 EAAQLANEMSEKGLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILI 468

Query:   227 FTYLKERKFFMLGEFLRDVGLGRK-DXXXXXXXXXXXSYAGNFKMKSLQREFMRMSEAGF 285
               Y  + K     E L DV L    D                 K + +   +  M E G 
Sbjct:   469 HGYSTQLKMENALEIL-DVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETYKTMVEKGC 527

Query:   286 HPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAY 334
              P+L TFNI   +  R     +    LE MK++SV PD VT+G ++D +
Sbjct:   528 APNLFTFNILLESLCRYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGF 576

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2081041 PPR2 "pentatricopeptide repeat 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 133 (51.9 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 69/335 (20%), Positives = 131/335 (39%)

Query:    13 KFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCAS-LVEDLGRKKKPHLAHQLVNTVK 71
             +F     P +Q      ++ +K+ R  K  G+V+  +  + DL  KK+   A ++ + ++
Sbjct:    56 EFPGITEPVNQRRTPIKNVKKKLDRRSKANGWVNTVTETLSDLIAKKQWLQALEVFDMLR 115

Query:    72 SEGLL-PDNSTLCALMLCYANNGFVLEAQXXXXXXXXXXXXXXXXXXXXXMDAYGRIGCF 130
              +    P   T   L++    +G    AQ                     + AY R    
Sbjct:   116 EQTFYQPKEGTYMKLLVLLGKSGQPNRAQKLFDEMLEEGLEPTVELYTALLAAYTRSNLI 175

Query:   131 NEIISIIDQVSCRNADLLPEV--YSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGN 188
             ++  SI+D++        P+V  YS  +       Q +L+++  KEM  R  + ++ T N
Sbjct:   176 DDAFSILDKMKSF-PQCQPDVFTYSTLLKACVDASQFDLVDSLYKEMDERLITPNTVTQN 234

Query:   189 AFIIYYSRFGSLTEMETAYGRLKRSRHLI-DKEGIRAVSFTYLKERKFFMLG---EFLRD 244
               +  Y R G   +ME     +  S     D   +  +   +    K  M+    E  R+
Sbjct:   235 IVLSGYGRVGRFDQMEKVLSDMLVSTACKPDVWTMNIILSVFGNMGKIDMMESWYEKFRN 294

Query:   245 VGLGRKDXXXXXXXXXXXSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSM 304
              G+  +                  KM S+  E+MR  E  F    +T+N    AF+ +  
Sbjct:   295 FGIEPETRTFNILIGSYGKKRMYDKMSSVM-EYMRKLE--FPWTTSTYNNIIEAFADVGD 351

Query:   305 FWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRL 339
               ++ L+ + M+ E +  D  T+ C+++ Y +  L
Sbjct:   352 AKNMELTFDQMRSEGMKADTKTFCCLINGYANAGL 386

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0048868 "pollen tube development" evidence=IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0009553 "embryo sac development" evidence=IMP

GO:0009555 "pollen development" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0019843 "rRNA binding" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9M2A1	PP263_ARATH	No assigned EC number	0.5676	0.9878	0.9807	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	412
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-05

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

 Score = 47.9 bits (114), Expect = 7e-06
 Identities = 33/94 (35%), Positives = 44/94 (46%), Gaps = 5/94 (5%)

Query: 249 RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDL 308
            KD+ +  WN+LL  Y  + K       F RM E+G +PD  TF     A SR  M    
Sbjct: 551 EKDVVS--WNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQG 608

Query: 309 HLSLEHMKHE-SVGPDLVTYGCVVDAYLDKRLGR 341
                 M+ + S+ P+L  Y CVVD  L  R G+
Sbjct: 609 LEYFHSMEEKYSITPNLKHYACVVD--LLGRAGK 640

Length = 857

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

 Score = 44.9 bits (106), Expect = 6e-05
 Identities = 56/271 (20%), Positives = 106/271 (39%), Gaps = 48/271 (17%)

Query: 65  QLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAY 124
           QL   V   G++ D    CAL+  Y+  G + +A+ V++ +   + V    +L+     Y
Sbjct: 245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLA----GY 300

Query: 125 GRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS 184
              G   E + +  ++      +    +S  I  F +   LE  +     ++  GF +D 
Sbjct: 301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI 360

Query: 185 ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRD 244
               A +  YS++G    ME A       R++ D+                         
Sbjct: 361 VANTALVDLYSKWG---RMEDA-------RNVFDR------------------------- 385

Query: 245 VGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTF--NIRAVAFSRM 302
             + RK+L  + WN L+  Y  + +       F RM   G  P+  TF   + A  +S +
Sbjct: 386 --MPRKNL--ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL 441

Query: 303 S-MFWDLHLSLEHMKHESVGPDLVTYGCVVD 332
           S   W++  S+   ++  + P  + Y C+++
Sbjct: 442 SEQGWEIFQSMS--ENHRIKPRAMHYACMIE 470

Length = 697

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	412
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.84
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.8
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.79
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.78
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.74
PRK14574	822	hmsH outer membrane protein; Provisional	99.72
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.62
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.62
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.61
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.6
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.6
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.6
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.58
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.57
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.54
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.53
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.52
KOG2076	895	consensus RNA polymerase III transcription factor	99.52
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.51
KOG2076	895	consensus RNA polymerase III transcription factor	99.51
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.51
PF13041	50	PPR_2: PPR repeat family	99.46
KOG2003	840	consensus TPR repeat-containing protein [General f	99.46
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.46
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.43
KOG1126	638	consensus DNA-binding cell division cycle control	99.42
PF13041	50	PPR_2: PPR repeat family	99.42
KOG1126	638	consensus DNA-binding cell division cycle control	99.42
PRK12370	553	invasion protein regulator; Provisional	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.41
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.39
PRK12370	553	invasion protein regulator; Provisional	99.37
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.32
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.31
KOG2003	840	consensus TPR repeat-containing protein [General f	99.3
KOG1129	478	consensus TPR repeat-containing protein [General f	99.29
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.27
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.25
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.21
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.2
KOG1129	478	consensus TPR repeat-containing protein [General f	99.19
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.14
PRK11189	296	lipoprotein NlpI; Provisional	99.14
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.12
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.12
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.05
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.05
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.04
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.03
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.02
PRK11189	296	lipoprotein NlpI; Provisional	99.02
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.01
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.0
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.98
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.9
PF12854	34	PPR_1: PPR repeat	98.89
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.88
PF12854	34	PPR_1: PPR repeat	98.87
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.84
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.83
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.79
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.78
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.78
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.77
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.77
KOG1125	579	consensus TPR repeat-containing protein [General f	98.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.74
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.73
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.7
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.68
PRK04841	903	transcriptional regulator MalT; Provisional	98.66
PRK04841	903	transcriptional regulator MalT; Provisional	98.66
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.64
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.64
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.63
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.59
PLN02789	320	farnesyltranstransferase	98.57
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.55
PRK15359	144	type III secretion system chaperone protein SscB;	98.55
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.54
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.54
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.53
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.52
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.51
PLN02789	320	farnesyltranstransferase	98.5
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.49
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.48
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.45
PRK15359	144	type III secretion system chaperone protein SscB;	98.45
KOG1125	579	consensus TPR repeat-containing protein [General f	98.44
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.44
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.43
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.41
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.38
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.35
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.35
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.34
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.33
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.33
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.31
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.3
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.26
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.26
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.25
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.25
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.25
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.23
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.22
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.2
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.19
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.19
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.18
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.16
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.14
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.11
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.09
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.08
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.07
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.04
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.02
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.0
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.0
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.94
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.92
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.91
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.88
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.87
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.8
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.8
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.77
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.75
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.75
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.73
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.68
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.68
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.67
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.64
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.61
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.61
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.61
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.6
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.59
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.55
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.5
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.5
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.48
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.31
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.28
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.27
PF12688	120	TPR_5: Tetratrico peptide repeat	97.27
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.27
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.26
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.24
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.18
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.17
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.16
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.13
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.1
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.08
PF12688	120	TPR_5: Tetratrico peptide repeat	97.06
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.03
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.03
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.01
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.99
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.99
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.99
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.95
KOG3941	406	consensus Intermediate in Toll signal transduction	96.95
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.94
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.93
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.83
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.8
KOG0553	304	consensus TPR repeat-containing protein [General f	96.78
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.75
KOG3941	406	consensus Intermediate in Toll signal transduction	96.75
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.71
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.66
KOG0553	304	consensus TPR repeat-containing protein [General f	96.64
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.64
PRK10803	263	tol-pal system protein YbgF; Provisional	96.63
PRK10803	263	tol-pal system protein YbgF; Provisional	96.62
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.51
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.42
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.39
PF13371	73	TPR_9: Tetratricopeptide repeat	96.36
PF13371	73	TPR_9: Tetratricopeptide repeat	96.26
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.24
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.23
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.23
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.15
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.11
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.02
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.95
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.89
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.87
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.8
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.8
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.74
PRK15331	165	chaperone protein SicA; Provisional	95.71
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.65
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.6
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.44
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.39
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.36
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.31
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.22
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.2
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.15
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.08
PRK15331	165	chaperone protein SicA; Provisional	94.99
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.99
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.98
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.98
PRK11906	458	transcriptional regulator; Provisional	94.87
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.83
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.74
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.72
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.7
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.64
KOG4555	175	consensus TPR repeat-containing protein [Function	94.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.47
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.41
KOG1585	308	consensus Protein required for fusion of vesicles	94.32
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.25
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.07
PF13428	44	TPR_14: Tetratricopeptide repeat	94.06
PF13428	44	TPR_14: Tetratricopeptide repeat	93.99
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.86
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.8
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.69
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.55
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.44
PF13512	142	TPR_18: Tetratricopeptide repeat	93.35
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.25
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.25
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.2
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.99
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.54
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.26
PF13512	142	TPR_18: Tetratricopeptide repeat	92.15
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.11
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.02
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.0
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.89
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.82
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	91.79
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	91.57
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.43
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.37
KOG4555	175	consensus TPR repeat-containing protein [Function	91.36
COG0457	291	NrfG FOG: TPR repeat [General function prediction	91.3
PF13929	292	mRNA_stabil: mRNA stabilisation	91.21
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.89
KOG1585	308	consensus Protein required for fusion of vesicles	90.75
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.69
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.68
COG0457	291	NrfG FOG: TPR repeat [General function prediction	90.44
COG4105	254	ComL DNA uptake lipoprotein [General function pred	90.39
PF13431	34	TPR_17: Tetratricopeptide repeat	90.0
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.98
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	89.87
PF13431	34	TPR_17: Tetratricopeptide repeat	89.79
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	89.76
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.72
PRK11906	458	transcriptional regulator; Provisional	89.57
PF13762	145	MNE1: Mitochondrial splicing apparatus component	89.21
COG4105	254	ComL DNA uptake lipoprotein [General function pred	88.18
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	87.64
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	87.34
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.28
PRK09687	280	putative lyase; Provisional	87.03
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	86.7
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	86.44
COG3947	361	Response regulator containing CheY-like receiver a	86.07
PRK09687	280	putative lyase; Provisional	85.84
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	85.68
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.64
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	85.28
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.16
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.8
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.62
PF13929	292	mRNA_stabil: mRNA stabilisation	84.44
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	84.05
COG4455	273	ImpE Protein of avirulence locus involved in tempe	84.05
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	83.84
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.6
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.08
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	82.6
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	82.17
PHA02875	413	ankyrin repeat protein; Provisional	81.6
COG4455	273	ImpE Protein of avirulence locus involved in tempe	80.99
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	80.84

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.2e-64  Score=499.08  Aligned_cols=383  Identities=14%  Similarity=0.109  Sum_probs=348.7

Q ss_pred             cccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      +..++..|.+.|.+++|..+|+.|..||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.||.+|++.|++
T Consensus       409 ~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~v  488 (1060)
T PLN03218        409 HAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV  488 (1060)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCH
Confidence            34566667777888888888888888888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      ++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.++.||..+|+.+|.+|++.|++++|.++|++|
T Consensus       489 d~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM  568 (1060)
T PLN03218        489 DAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEM  568 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HH--CCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcc
Q 040580          176 VS--RGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLG  253 (412)
Q Consensus       176 ~~--~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  253 (412)
                      ..  .|+.||..+|+++|.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|...+..||
T Consensus       569 ~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD  648 (1060)
T PLN03218        569 KAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPD  648 (1060)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Confidence            76  6789999999999999999999999999999999999999999999999999999999999999999998888888


Q ss_pred             hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 040580          254 NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDA  333 (412)
Q Consensus       254 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  333 (412)
                      ..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+
T Consensus       649 ~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~g  728 (1060)
T PLN03218        649 EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA  728 (1060)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc----CchHHHHHHHHHH
Q 040580          334 YLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR----QRKWTYRKLIAVY  398 (412)
Q Consensus       334 ~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~----~~~~~~~~l~~~~  398 (412)
                      |++.|++++|.+++++| ..+..||..||+.++.+|++ |+.++|.+++.+|..    ||..+|++++..|
T Consensus       729 y~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc  799 (1060)
T PLN03218        729 LCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC  799 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            99999999999999999 77889999999999999988 999999999999876    8889999988653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.2e-64  Score=494.62  Aligned_cols=390  Identities=13%  Similarity=0.105  Sum_probs=375.8

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhccCh-----hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQEGF-----VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLC   88 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~   88 (412)
                      +.+..++..+++.|++++|.++|++|++++.     ..++.++..|.+.|.+++|..+|+.|..    ||..+|+.+|.+
T Consensus       371 ~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a  446 (1060)
T PLN03218        371 PEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSV  446 (1060)
T ss_pred             hHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHH
Confidence            5577888888899999999999999998654     4566778889999999999999999974    999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      |++.|+++.|.++|+.|.+.|+.||..+|++||.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeA  526 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA  526 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh--CCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHh
Q 040580          169 ENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKR--SRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVG  246 (412)
Q Consensus       169 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  246 (412)
                      .++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+++|.+|++.|++++|.++|++|.
T Consensus       527 l~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~  606 (1060)
T PLN03218        527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH  606 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999986  6899999999999999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhh
Q 040580          247 LGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVT  326 (412)
Q Consensus       247 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  326 (412)
                      ..+..++..+||.+|.+|++.|++++|..+|++|.+.|+.||..||+.+|.+|++.|++++|.+++++|.+.|+.||..+
T Consensus       607 e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~t  686 (1060)
T PLN03218        607 EYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVS  686 (1060)
T ss_pred             HcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            99988899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc----CchHHHHHHHHHHHH
Q 040580          327 YGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR----QRKWTYRKLIAVYLK  400 (412)
Q Consensus       327 ~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~  400 (412)
                      |++||.+|++.|++++|.++|++| ..+..||..+|+.||.+|++ |+.++|.++|.+|..    ||..+|++++++|++
T Consensus       687 ynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k  766 (1060)
T PLN03218        687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER  766 (1060)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999 77899999999999999999 999999999999975    899999999999999


Q ss_pred             cCccccc
Q 040580          401 KQLRRNQ  407 (412)
Q Consensus       401 ~g~~~~a  407 (412)
                      .|+.++|
T Consensus       767 ~G~le~A  773 (1060)
T PLN03218        767 KDDADVG  773 (1060)
T ss_pred             CCCHHHH
Confidence            9999988

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

Probab=100.00  E-value=2.5e-62  Score=478.95  Aligned_cols=385  Identities=16%  Similarity=0.146  Sum_probs=368.8

Q ss_pred             hhccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           13 KFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        13 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      ...++.++.+|++.|++++|.++|++|++||..+||.+|.+|++.|++++|+++|++|.+.|+.|+..||+.++.+|++.
T Consensus       158 ~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~  237 (697)
T PLN03081        158 QYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL  237 (697)
T ss_pred             hHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcC
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTL  172 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  172 (412)
                      |+.+.+.+++..+.+.|+.||..+||+|+.+|+++|++++|.++|++|..    ++..+||++|.+|++.|++++|+++|
T Consensus       238 ~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf  313 (697)
T PLN03081        238 GSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLY  313 (697)
T ss_pred             CcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999964    46689999999999999999999999


Q ss_pred             HHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc
Q 040580          173 KEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL  252 (412)
Q Consensus       173 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  252 (412)
                      ++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|++||.+|++.|++++|.++|++|..    +
T Consensus       314 ~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~  389 (697)
T PLN03081        314 YEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----K  389 (697)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----C
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999854    3


Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh-CCCCCCHhhHHHHH
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH-ESVGPDLVTYGCVV  331 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li  331 (412)
                      |..+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++
T Consensus       390 d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li  469 (697)
T PLN03081        390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMI  469 (697)
T ss_pred             CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHH
Confidence            66999999999999999999999999999999999999999999999999999999999999976 79999999999999


Q ss_pred             HHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          332 DAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       332 ~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      ++|++.|+.++|.+++++|.  ..|+..+|+.|+.+|+. |+.+.|.++++++..   .+..+|..|+++|++.|++++|
T Consensus       470 ~~l~r~G~~~eA~~~~~~~~--~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A  547 (697)
T PLN03081        470 ELLGREGLLDEAYAMIRRAP--FKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA  547 (697)
T ss_pred             HHHHhcCCHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHH
Confidence            99999999999999999884  67899999999999988 999999888887654   5678999999999999999998

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.7e-60  Score=476.53  Aligned_cols=385  Identities=14%  Similarity=0.078  Sum_probs=335.0

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG   93 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~   93 (412)
                      ..++.++.+|++.|++++|.++|++|+++|..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|
T Consensus       223 ~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g  302 (857)
T PLN03077        223 DVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG  302 (857)
T ss_pred             chHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLK  173 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  173 (412)
                      +++.+.+++..|.+.|+.||..+||+|+.+|++.|++++|.++|++|.    .|+..+||++|.+|++.|++++|+++|+
T Consensus       303 ~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~  378 (857)
T PLN03077        303 DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYA  378 (857)
T ss_pred             ChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999996    4667899999999999999999999999


Q ss_pred             HHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcc
Q 040580          174 EMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLG  253 (412)
Q Consensus       174 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  253 (412)
                      +|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..++++||.+|++.|++++|.++|++|..    +|
T Consensus       379 ~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d  454 (857)
T PLN03077        379 LMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KD  454 (857)
T ss_pred             HHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999854    24


Q ss_pred             hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhH------------------------------------------
Q 040580          254 NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTT------------------------------------------  291 (412)
Q Consensus       254 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------------------------------------------  291 (412)
                      ..+||++|.+|++.|+.++|+.+|++|.. ++.||..|                                          
T Consensus       455 ~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~  533 (857)
T PLN03077        455 VISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDL  533 (857)
T ss_pred             eeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHH
Confidence            58999999999999999999999999975 46666554                                          


Q ss_pred             -----------------------HHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHH
Q 040580          292 -----------------------FNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLS  348 (412)
Q Consensus       292 -----------------------~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~  348 (412)
                                             ||++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.++++.++|+
T Consensus       534 y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~  613 (857)
T PLN03077        534 YVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFH  613 (857)
T ss_pred             HHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHH
Confidence                                   455555666666666777777777777777777777777777777777777777777


Q ss_pred             hc--cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhc-cCchHHHHHHHHHHHHcCccccc
Q 040580          349 KM--NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFK-RQRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       349 ~m--~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      .|  ..+..|+..+|++++++|++ |+.++|.+++++|. +||..+|++|+++|...|+.+.+
T Consensus       614 ~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~  676 (857)
T PLN03077        614 SMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELG  676 (857)
T ss_pred             HHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Confidence            77  24666777777777777766 77777777777763 36677777777777666666544

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.9e-60  Score=472.24  Aligned_cols=382  Identities=12%  Similarity=0.023  Sum_probs=362.8

Q ss_pred             ccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           15 KRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF   94 (412)
Q Consensus        15 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~   94 (412)
                      .++.++..|++.|+++.|.++|++|+++|..+||.+|.+|++.|++++|+++|++|...|+.||..||+.++++|+..++
T Consensus       123 ~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~  202 (857)
T PLN03077        123 LGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPD  202 (857)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccc
Confidence            45889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKE  174 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  174 (412)
                      ++.+.+++..|.+.|+.||..+||+|+.+|++.|+++.|.++|++|..    +|..+||++|.+|++.|++++|+++|++
T Consensus       203 ~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~  278 (857)
T PLN03077        203 LARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFT  278 (857)
T ss_pred             hhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999964    5668999999999999999999999999


Q ss_pred             HHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcch
Q 040580          175 MVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGN  254 (412)
Q Consensus       175 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~  254 (412)
                      |.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|..    +|.
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~  354 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDA  354 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCe
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999853    356


Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAY  334 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  334 (412)
                      .+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|++||++|
T Consensus       355 ~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y  434 (857)
T PLN03077        355 VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY  434 (857)
T ss_pred             eeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          335 LDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       335 ~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      ++.|++++|.++|++|.   .||..+|+.+|.+|++ |+.++|.++|.+|..   ||..+|++++.+|++.|..+.+
T Consensus       435 ~k~g~~~~A~~vf~~m~---~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~  508 (857)
T PLN03077        435 SKCKCIDKALEVFHNIP---EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCG  508 (857)
T ss_pred             HHcCCHHHHHHHHHhCC---CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHh
Confidence            99999999999999994   3688899999999988 999999999999874   8888888777766666655544

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

Probab=100.00  E-value=2.4e-58  Score=450.97  Aligned_cols=382  Identities=15%  Similarity=0.100  Sum_probs=340.9

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhc-----cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQ-----EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLC   88 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~   88 (412)
                      .+++.++..|.+.|++++|.++|++|..     +|..+|+.++.+|++.++++.+.+++..|.+.|+.||..+|+.|+.+
T Consensus        88 ~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~  167 (697)
T PLN03081         88 VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLM  167 (697)
T ss_pred             eeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            5678888888888888888888888853     47788888888888888888888888888888888888888888888


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC--------------------
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLL--------------------  148 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------------  148 (412)
                      |++.|+++.|.++|++|.    .||..+||+++.+|++.|++++|.++|++|.+.|+.|+                    
T Consensus       168 y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        168 HVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            888888888888888885    47888888888888888888888888888876665554                    


Q ss_pred             ---------------HHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          149 ---------------PEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       149 ---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                                     ..+||+||.+|++.|++++|.++|++|..    +|..+|+++|.+|++.|+.++|.++|++|.+.
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~  319 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDS  319 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence                           44567788888899999999999998864    58899999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHH
Q 040580          214 RHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFN  293 (412)
Q Consensus       214 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  293 (412)
                      |+.||..||+.++.+|++.|++++|.+++..|...+..+|..+||+||.+|++.|++++|.++|++|.    .||..|||
T Consensus       320 g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n  395 (697)
T PLN03081        320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWN  395 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHH
Confidence            99999999999999999999999999999999888888889999999999999999999999999997    58999999


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-c-CCCCCCcccHHHHHHHHhc-
Q 040580          294 IRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-N-LDDSPVVSTDPYVFEAFGK-  370 (412)
Q Consensus       294 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~-~~~~p~~~~~~~li~~~~~-  370 (412)
                      +||.+|++.|+.++|.++|++|.+.|+.||..||++++.+|++.|..+++.++|+.| + .+..|+..+|++++++|++ 
T Consensus       396 ~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~  475 (697)
T PLN03081        396 ALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGRE  475 (697)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999999999999 3 5899999999999999999 


Q ss_pred             CCcccHHHHHHHhcc-CchHHHHHHHHHHHHcCccccc
Q 040580          371 GDFHSSSEAFLEFKR-QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       371 ~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      |+.++|.+++.+|.. |+..+|++|+++|...|+.+.|
T Consensus       476 G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a  513 (697)
T PLN03081        476 GLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELG  513 (697)
T ss_pred             CCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHH
Confidence            999999999999854 8999999999999999998877

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

Probab=99.96  E-value=8.8e-25  Score=222.78  Aligned_cols=376  Identities=10%  Similarity=-0.044  Sum_probs=209.3

Q ss_pred             ccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHH
Q 040580           21 SHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLE   97 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~   97 (412)
                      ..+...|++++|...++.+..   .+..++..+...+.+.|+.++|..+|+++.+.+ +.+...+..+...+.+.|++++
T Consensus       507 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  585 (899)
T TIGR02917       507 RIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKK  585 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHH
Confidence            333344444444444444322   133344444444444444444444444444332 2233444444555555555555


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580           98 AQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus        98 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      |..+++.+.+.. +.+..+|..+..++.+.|++++|...|+++.+.+ +.++..+..+...+.+.|++++|..+|+++.+
T Consensus       586 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  663 (899)
T TIGR02917       586 ALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALE  663 (899)
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555555554432 3444555555555555555555555555554433 33344555555555555555555555555554


Q ss_pred             CCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHH
Q 040580          178 RGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLW  257 (412)
Q Consensus       178 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  257 (412)
                      ... .+..++..+...+...|++++|..+++.+.+.+ +.+...+..+...+...|++++|.+.++.+....++.  .++
T Consensus       664 ~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~  739 (899)
T TIGR02917       664 LKP-DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSS--QNA  739 (899)
T ss_pred             cCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCc--hHH
Confidence            321 134455555555555556666665555555543 3345555556666666666666666666654444332  455


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 040580          258 NLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDK  337 (412)
Q Consensus       258 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  337 (412)
                      ..+...+.+.|++++|...++++.+.. +.+...+..+...|...|+.++|...|+++.+.. +++...++.+...+...
T Consensus       740 ~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  817 (899)
T TIGR02917       740 IKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLEL  817 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            556666666666666666666666542 3345566666667777777777777777776543 23566667777777777


Q ss_pred             cccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          338 RLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       338 ~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      |+ .+|.+.+++. ...+ -+...+..+...+.. |++++|.+.+.++..   .++.++..++.+|.+.|+.++|
T Consensus       818 ~~-~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A  890 (899)
T TIGR02917       818 KD-PRALEYAEKALKLAP-NIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEA  890 (899)
T ss_pred             Cc-HHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHH
Confidence            77 5677777666 3221 122233344444544 888888888877654   4678888888888888888887

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=99.95  E-value=2.5e-24  Score=219.45  Aligned_cols=378  Identities=11%  Similarity=-0.034  Sum_probs=174.6

Q ss_pred             ccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHH
Q 040580           21 SHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLE   97 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~   97 (412)
                      ..+.+.|++++|..+++.+..   .+..+|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++
T Consensus       439 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~  517 (899)
T TIGR02917       439 LSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDD  517 (899)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHH
Confidence            344445555555555544432   133445555555555555555555555554432 2233334444444455555555


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580           98 AQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus        98 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      |...|+.+.+.+ +.+..++..+...+.+.|+.++|...++++...+ +.+...+..+...+.+.|++++|..+++++.+
T Consensus       518 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  595 (899)
T TIGR02917       518 AIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAAD  595 (899)
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555544432 3344444444444444444444444444443332 22233444444444444444444444444433


Q ss_pred             CCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---------------------------------CCCHHHHHH
Q 040580          178 RGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH---------------------------------LIDKEGIRA  224 (412)
Q Consensus       178 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---------------------------------~~~~~~~~~  224 (412)
                      .. +.+...|..+..++.+.|++++|...|+.+.+...                                 +.+..++..
T Consensus       596 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  674 (899)
T TIGR02917       596 AA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIG  674 (899)
T ss_pred             cC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            21 12333444444444444444444444444443220                                 123344444


Q ss_pred             HHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCC
Q 040580          225 VSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSM  304 (412)
Q Consensus       225 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~  304 (412)
                      +...+...|++++|.++++.+....+. +...+..+...+...|++++|...|+++.+.  .|+..++..+..++.+.|+
T Consensus       675 l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  751 (899)
T TIGR02917       675 LAQLLLAAKRTESAKKIAKSLQKQHPK-AALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGN  751 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCC
Confidence            444444444444444444444333222 2244444445555555555555555555443  2333444445555555555


Q ss_pred             hhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHh
Q 040580          305 FWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEF  383 (412)
Q Consensus       305 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~  383 (412)
                      +++|.+.+..+.+.. +.+...+..+...|...|+.++|.+.++++....+++...++.+...+.+ |+ .+|.+.+.+.
T Consensus       752 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~  829 (899)
T TIGR02917       752 TAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKA  829 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHH
Confidence            555555555544432 22444555555555555555555555555522122333444444444444 44 4455555543


Q ss_pred             c---cCchHHHHHHHHHHHHcCccccc
Q 040580          384 K---RQRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       384 ~---~~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      .   +.++..+..++.+|.+.|++++|
T Consensus       830 ~~~~~~~~~~~~~~~~~~~~~g~~~~A  856 (899)
T TIGR02917       830 LKLAPNIPAILDTLGWLLVEKGEADRA  856 (899)
T ss_pred             HhhCCCCcHHHHHHHHHHHHcCCHHHH
Confidence            2   24455555666666666666665

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=99.92  E-value=9.5e-22  Score=181.09  Aligned_cols=302  Identities=12%  Similarity=0.001  Sum_probs=241.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC---HHHHHHHHHHHHcc
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS---VQVLSDLMDAYGRI  127 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~  127 (412)
                      ...+...|++++|...|.++.+.+ +.+..++..+...+...|++++|..+++.+.+.+..++   ..++..+...|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            334567789999999999998864 33566888899999999999999999999887542221   35688889999999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh----HHHHHHHHHHHhcCCHHHH
Q 040580          128 GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS----ATGNAFIIYYSRFGSLTEM  203 (412)
Q Consensus       128 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a  203 (412)
                      |+++.|.++|+++.+.. +.+..+++.++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|
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            99999999999997653 455668999999999999999999999999886544322    2345667778889999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          204 ETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      ...++++.+.. +.+...+..+...+.+.|++++|.+.++++....+.....+++.++.+|...|++++|...++++.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999988754 33466778888999999999999999998865554433467888999999999999999999998876


Q ss_pred             CCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh---ccccchHHHHHHhc-cCCCCCCcc
Q 040580          284 GFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD---KRLGRNLDFGLSKM-NLDDSPVVS  359 (412)
Q Consensus       284 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---~~~~~~a~~~~~~m-~~~~~p~~~  359 (412)
                        .|+...+..+...+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++..++++| +.++.|+..
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence              577777788889999999999999999988764  6888888888887775   45788888889888 555555544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=7.4e-22  Score=181.79  Aligned_cols=308  Identities=14%  Similarity=0.019  Sum_probs=255.1

Q ss_pred             ccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC---HHhHHHHHHHHHhcCC
Q 040580           21 SHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD---NSTLCALMLCYANNGF   94 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~   94 (412)
                      ..+...|++++|...|+++.+.   +..++..+...+...|++++|..+++.+...+..++   ..++..+...+.+.|+
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3456789999999999998754   556788899999999999999999999987643222   3567888999999999


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCH----HhHHHHHHHHHhcCChHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLP----EVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~  170 (412)
                      +++|..+|+.+.+.. +++..+++.++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            999999999999864 567889999999999999999999999999876532221    245667788889999999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCC
Q 040580          171 TLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRK  250 (412)
Q Consensus       171 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  250 (412)
                      .|+++.+... .+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|.+.|++++|.+.++++....+
T Consensus       202 ~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p  280 (389)
T PRK11788        202 LLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYP  280 (389)
T ss_pred             HHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999987532 245677788899999999999999999998765333356788999999999999999999999866655


Q ss_pred             CcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHc---cCChhHHHHHHHHHHhCCCCCCHhhH
Q 040580          251 DLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR---MSMFWDLHLSLEHMKHESVGPDLVTY  327 (412)
Q Consensus       251 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~  327 (412)
                      +.  ..+..+...+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++..++++|.+.++.|++.  
T Consensus       281 ~~--~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~--  354 (389)
T PRK11788        281 GA--DLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR--  354 (389)
T ss_pred             Cc--hHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC--
Confidence            43  56688999999999999999999998875  7999999988888775   558999999999999988888876  


Q ss_pred             HHHHHHHHhcccc
Q 040580          328 GCVVDAYLDKRLG  340 (412)
Q Consensus       328 ~~li~~~~~~~~~  340 (412)
                          ..|.++|..
T Consensus       355 ----~~c~~cg~~  363 (389)
T PRK11788        355 ----YRCRNCGFT  363 (389)
T ss_pred             ----EECCCCCCC
Confidence                235556554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.87  E-value=8.8e-18  Score=162.70  Aligned_cols=323  Identities=10%  Similarity=-0.025  Sum_probs=243.5

Q ss_pred             cccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF   94 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~   94 (412)
                      .++..+.+.|++++|..+++.+..   .+...+..++.+....|+++.|...|+++.+.. +.+...+..+...+...|+
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~  125 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQ  125 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCC
Confidence            344556788899999888887754   255566667777778899999999999988763 3356677888888888999


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKE  174 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  174 (412)
                      +++|...++...+.. +.+...+..+...+...|++++|...++++.... +.++..+..+ ..+...|++++|...++.
T Consensus       126 ~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~  202 (656)
T PRK15174        126 YATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARA  202 (656)
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHH
Confidence            999999999888764 5567788888888999999999999888876554 3344444443 347788999999999988


Q ss_pred             HHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHH----HHHHHHHHhcCCC
Q 040580          175 MVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFM----LGEFLRDVGLGRK  250 (412)
Q Consensus       175 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~~~~~~~  250 (412)
                      +.+....++......+..++.+.|++++|...++...+.. +.+...+..+...|...|++++    |...+++.....+
T Consensus       203 ~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P  281 (656)
T PRK15174        203 LLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS  281 (656)
T ss_pred             HHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC
Confidence            8776433344455556677888899999999998888765 3457778888888888888875    7888887655444


Q ss_pred             CcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHh-hHH
Q 040580          251 DLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLV-TYG  328 (412)
Q Consensus       251 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~  328 (412)
                      + +..++..+...+...|++++|...+++..+.  .|+ ...+..+..++.+.|++++|...++.+...  .|+.. .+.
T Consensus       282 ~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~  356 (656)
T PRK15174        282 D-NVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNR  356 (656)
T ss_pred             C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHH
Confidence            4 4578888888899999999999999888865  444 456667788888899999999998888764  34432 233


Q ss_pred             HHHHHHHhccccchHHHHHHhc
Q 040580          329 CVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       329 ~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      .+..++...|+.++|.+.+++.
T Consensus       357 ~~a~al~~~G~~deA~~~l~~a  378 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHY  378 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH
Confidence            3456678889999999998887

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=1.5e-17  Score=161.09  Aligned_cols=352  Identities=10%  Similarity=-0.043  Sum_probs=276.5

Q ss_pred             ccCCCChHHHHHHHHHhhcc------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChH
Q 040580           23 QTHPKNGDLARKIIRYRKQE------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVL   96 (412)
Q Consensus        23 ~~~~~~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~   96 (412)
                      +.+..+|+..--.|..-++.      +..-.-.++..+.+.|++++|..+++........ +...+..++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHH
Confidence            44667777777777665543      3334556677888999999999999999886433 4556666677778899999


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      .|...++.+.+.. +.+...+..+...+.+.|++++|...+++..... +.++..+..+...+...|++++|...++.+.
T Consensus        94 ~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            9999999999875 5677889999999999999999999999998754 4556789999999999999999999999887


Q ss_pred             HCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHH
Q 040580          177 SRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLL  256 (412)
Q Consensus       177 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  256 (412)
                      .....+ ...+..+ ..+.+.|++++|...++.+.+....++......+..++...|++++|...+++.....++ +...
T Consensus       172 ~~~P~~-~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~  248 (656)
T PRK15174        172 QEVPPR-GDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAAL  248 (656)
T ss_pred             HhCCCC-HHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHH
Confidence            754332 2233333 347889999999999999887654445555666678899999999999999987655544 4578


Q ss_pred             HHHHHHHHhcCCChHH----HHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHH
Q 040580          257 WNLLLLSYAGNFKMKS----LQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVV  331 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~----a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  331 (412)
                      +..+...|...|++++    |...|++..+.  .|+ ...+..+...+...|++++|...+++..+.... +...+..+.
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La  325 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            8889999999999986    89999998865  454 678889999999999999999999998875322 455677788


Q ss_pred             HHHHhccccchHHHHHHhc-cCCCCCCcccH-HHHHHHHhc-CCcccHHHHHHHhcc
Q 040580          332 DAYLDKRLGRNLDFGLSKM-NLDDSPVVSTD-PYVFEAFGK-GDFHSSSEAFLEFKR  385 (412)
Q Consensus       332 ~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~-~~li~~~~~-~~~~~a~~~~~~~~~  385 (412)
                      .++.+.|++++|.+.++.+ ...  |+...+ ..+..++.. |+.++|.+.+.+...
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8999999999999999998 433  333232 223345555 999999999988644

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.84  E-value=8.2e-17  Score=166.27  Aligned_cols=377  Identities=8%  Similarity=-0.050  Sum_probs=252.8

Q ss_pred             ccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCC-CHHhHH------------H
Q 040580           21 SHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLP-DNSTLC------------A   84 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~------------~   84 (412)
                      ..+...|++++|...|++..+   .+...+..+...+.+.|++++|+..|++..+..... ....+.            .
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH
Confidence            456678999999999988765   267788889999999999999999999988753221 112221            2


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH------
Q 040580           85 LMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC------  158 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~------  158 (412)
                      ....+.+.|++++|...|+++.+.. +.+...+..+...+...|++++|++.|++..+.. +.++..+..+...      
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~  434 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSP  434 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCH
Confidence            2345678899999999999999875 5567788889999999999999999999987654 3334444433333      


Q ss_pred             ------------------------------------HHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHH
Q 040580          159 ------------------------------------FGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLT  201 (412)
Q Consensus       159 ------------------------------------~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~  201 (412)
                                                          +...|++++|++.|++..+.  .| +...+..+...+.+.|+++
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~  512 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRS  512 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHH
Confidence                                                33455666666666665553  23 2334445555566666666


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcch---------HHHHHHHHHHhcCCChHH
Q 040580          202 EMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGN---------LLWNLLLLSYAGNFKMKS  272 (412)
Q Consensus       202 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~li~~~~~~g~~~~  272 (412)
                      +|...++.+.+.. +.+...+..+...+...++.++|...++.+.....+.+.         ..+..+...+...|+.++
T Consensus       513 ~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~e  591 (1157)
T PRK11447        513 QADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAE  591 (1157)
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHH
Confidence            6666666655432 123333333344445556666666666554322221111         111233455667778888


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccC
Q 040580          273 LQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNL  352 (412)
Q Consensus       273 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  352 (412)
                      |..+++.     .+++...+..+...+.+.|+.++|...|++..+... .+...+..+...|...|+.++|.+.++....
T Consensus       592 A~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~  665 (1157)
T PRK11447        592 AEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREP-GNADARLGLIEVDIAQGDLAAARAQLAKLPA  665 (1157)
T ss_pred             HHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            8777661     244556677788889999999999999999887532 2577888899999999999999999998732


Q ss_pred             CCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc--C-------chHHHHHHHHHHHHcCcccccc
Q 040580          353 DDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR--Q-------RKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       353 ~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~--~-------~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                      ....+......+-..+.. |++++|.+.+.+...  +       +...+..+...+.+.|+.++|.
T Consensus       666 ~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~  731 (1157)
T PRK11447        666 TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQAL  731 (1157)
T ss_pred             cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHH
Confidence            221222333444455545 999999999998754  1       1246677788899999998883

>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=99.84  E-value=1.2e-16  Score=155.02  Aligned_cols=356  Identities=9%  Similarity=-0.049  Sum_probs=258.3

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      +......+.+.|++++|+..|++..+.  .|+...|..+..+|.+.|++++|...++..++.+ +.+...|..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445566677778888888888877753  5677777777778888888888888888877764 4456777778888888


Q ss_pred             cCCHHHHHHHHHHHhhcCC-----------------------------CCCHHhHHHH----------------------
Q 040580          127 IGCFNEIISIIDQVSCRNA-----------------------------DLLPEVYSRA----------------------  155 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~-----------------------------~~~~~~~~~l----------------------  155 (412)
                      .|++++|..-|......+-                             +.+...+..+                      
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            8888877665543321110                             0000000000                      


Q ss_pred             --------HHH------HHhcCChHHHHHHHHHHHHCC-CCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 040580          156 --------ISC------FGKQGQLELMENTLKEMVSRG-FSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDK  219 (412)
Q Consensus       156 --------i~~------~~~~g~~~~a~~~~~~m~~~g-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  219 (412)
                              +..      ....+++++|.+.|++..+.+ ..| ....+..+...+...|++++|...++...+.. +-..
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~  365 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVT  365 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcH
Confidence                    000      012357889999999998764 334 34567778888889999999999999998764 2246


Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHH
Q 040580          220 EGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAF  299 (412)
Q Consensus       220 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  299 (412)
                      ..|..+...+...|++++|...+++.-...++ +..+|..+...+...|++++|+..|++..+.. +.+...+..+...+
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~  443 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHH
Confidence            68888999999999999999999986444333 35889999999999999999999999998753 33466777888899


Q ss_pred             HccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccH------HHHHHHHh-cC
Q 040580          300 SRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTD------PYVFEAFG-KG  371 (412)
Q Consensus       300 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~------~~li~~~~-~~  371 (412)
                      .+.|++++|...+++..+.. +-+...++.+...+...|++++|.+.+++. ......+....      +.....+. .|
T Consensus       444 ~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~  522 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQ  522 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhh
Confidence            99999999999999987642 225678888899999999999999999986 43322111111      11222333 38


Q ss_pred             CcccHHHHHHHhc---cCchHHHHHHHHHHHHcCccccccc
Q 040580          372 DFHSSSEAFLEFK---RQRKWTYRKLIAVYLKKQLRRNQIF  409 (412)
Q Consensus       372 ~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~  409 (412)
                      ++++|.+.+.+..   +.+...+..++..|.+.|++++|.-
T Consensus       523 ~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~  563 (615)
T TIGR00990       523 DFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALK  563 (615)
T ss_pred             hHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHH
Confidence            9999999998743   3566779999999999999999943

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.82  E-value=4.5e-16  Score=133.53  Aligned_cols=356  Identities=10%  Similarity=0.002  Sum_probs=267.1

Q ss_pred             HHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCH
Q 040580           35 IIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSV  114 (412)
Q Consensus        35 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  114 (412)
                      ++-+...++..+|..||.++++--..++|.+++++-.....+.+..+||.+|.+-+-...    .++..+|....+.||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCch
Confidence            444455556779999999999999999999999999888889999999999987654433    7889999999999999


Q ss_pred             HHHHHHHHHHHccCCHHH----HHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHH-HHHHHHHH----HHCCCCC---
Q 040580          115 QVLSDLMDAYGRIGCFNE----IISIIDQVSCRNADLLPEVYSRAISCFGKQGQLEL-MENTLKEM----VSRGFSV---  182 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m----~~~g~~p---  182 (412)
                      .|+|+++++.++.|+++.    |.+++.+|++-|+.|...+|..+|..+++-++..+ +..++.++    ..+.++|   
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p  353 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITP  353 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCC
Confidence            999999999999998765    56788899999999999999999999999988754 34444444    3344444   


Q ss_pred             -ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCC---HHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcch
Q 040580          183 -DSATGNAFIIYYSRFGSLTEMETAYGRLKRSR----HLID---KEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGN  254 (412)
Q Consensus       183 -~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~  254 (412)
                       |..-|...|..|.+..+.+.|.++..-+....    +.|+   ..-|..+..+.|.....+.....++.|...-.-|+.
T Consensus       354 ~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~  433 (625)
T KOG4422|consen  354 TDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHS  433 (625)
T ss_pred             chhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCc
Confidence             44567888999999999999999988776532    2333   234677788888888999999999998776666677


Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccC-Ch--------------------hHHHHHHH
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMS-MF--------------------WDLHLSLE  313 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g-~~--------------------~~a~~~~~  313 (412)
                      .+...++.+....|.++-.-+++.+++..|..-+...-.-++.-+++.. +.                    +....--.
T Consensus       434 ~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~  513 (625)
T KOG4422|consen  434 QTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPI  513 (625)
T ss_pred             hhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            8899999999999999999999999998885555544444555555443 11                    00111123


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cC-CCCCCcccHHHHHHHH----hcCCcccHHHHHHHhccCc
Q 040580          314 HMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NL-DDSPVVSTDPYVFEAF----GKGDFHSSSEAFLEFKRQR  387 (412)
Q Consensus       314 ~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~-~~~p~~~~~~~li~~~----~~~~~~~a~~~~~~~~~~~  387 (412)
                      +|.+..+.  ....+.+.-.+.|.|+.++|.+++..+ +. +-.|.....+.++...    .+.+...|...+.-+...|
T Consensus       514 R~r~~~~~--~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  514 RQRAQDWP--ATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             HHHhccCC--hhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            34444444  445666777788999999999999998 43 3336666666555543    3377778888888776666


Q ss_pred             hHHHHHHHH
Q 040580          388 KWTYRKLIA  396 (412)
Q Consensus       388 ~~~~~~l~~  396 (412)
                      .....-|.+
T Consensus       592 ~~~~E~La~  600 (625)
T KOG4422|consen  592 LPICEGLAQ  600 (625)
T ss_pred             chhhhHHHH
Confidence            555554443

>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=99.82  E-value=1e-15  Score=148.69  Aligned_cols=360  Identities=9%  Similarity=-0.069  Sum_probs=269.6

Q ss_pred             cccccccCCCChHHHHHHHHHhhc--cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQ--EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      .....+.+.|++++|...|++...  |+...|..+..++.+.|++++|++.++...+.. +.+...|..+..++...|++
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~  210 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKY  210 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            455677889999999999998764  577788889999999999999999999998863 33567888899999999999


Q ss_pred             HHHHHHHHHHHhCC-C----------------------------CcCHHHHHHH--------------------------
Q 040580           96 LEAQVVWEELLSSS-F----------------------------VLSVQVLSDL--------------------------  120 (412)
Q Consensus        96 ~~a~~~~~~m~~~~-~----------------------------~~~~~~~~~l--------------------------  120 (412)
                      ++|..-|......+ .                            +++...+..+                          
T Consensus       211 ~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  290 (615)
T TIGR00990       211 ADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEET  290 (615)
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccccc
Confidence            99987665443211 0                            0000000000                          


Q ss_pred             ----HHHH------HccCCHHHHHHHHHHHhhcC-CCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-hHHH
Q 040580          121 ----MDAY------GRIGCFNEIISIIDQVSCRN-ADL-LPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD-SATG  187 (412)
Q Consensus       121 ----i~~~------~~~~~~~~a~~~~~~m~~~~-~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~  187 (412)
                          +...      ...+++++|.+.|++..+.+ ..| ....|+.+...+...|++++|+..|++..+.  .|+ ...|
T Consensus       291 ~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~  368 (615)
T TIGR00990       291 GNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSY  368 (615)
T ss_pred             ccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHH
Confidence                0000      11257889999999987654 122 2347888888889999999999999999875  454 5578


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN  267 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  267 (412)
                      ..+...+...|++++|...|+...+.. +.+..++..+...+...|++++|...|++.....++ +...+..+...+.+.
T Consensus       369 ~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~  446 (615)
T TIGR00990       369 IKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKE  446 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHC
Confidence            888888999999999999999998764 346788999999999999999999999987555444 357788888999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHh------hHHHHHHHHHhcccc
Q 040580          268 FKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLV------TYGCVVDAYLDKRLG  340 (412)
Q Consensus       268 g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~------~~~~li~~~~~~~~~  340 (412)
                      |++++|+..|++..+.  .|+ ...++.+...+...|++++|...|++........+..      .++.....+...|++
T Consensus       447 g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~  524 (615)
T TIGR00990       447 GSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDF  524 (615)
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhH
Confidence            9999999999998864  454 6788889999999999999999999987643221111      112222233346899


Q ss_pred             chHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc
Q 040580          341 RNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR  385 (412)
Q Consensus       341 ~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~  385 (412)
                      ++|.+.+++. ...+ .+...+..+...+.+ |++++|.+.+++...
T Consensus       525 ~eA~~~~~kAl~l~p-~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       525 IEAENLCEKALIIDP-ECDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            9999999987 4432 222345666666766 999999999987544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.80  E-value=8.4e-16  Score=158.85  Aligned_cols=364  Identities=10%  Similarity=-0.044  Sum_probs=267.4

Q ss_pred             CCchhhccccccccccCCCChHHHHHHHHHhhccCh-----hhHHHH------------HHHHhcCCChhHHHHHHHHHH
Q 040580            9 HGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGF-----VDCASL------------VEDLGRKKKPHLAHQLVNTVK   71 (412)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~l------------i~~~~~~~~~~~a~~~~~~m~   71 (412)
                      ++.....+..+...|.+.|++++|+..|++..+.+.     ..|..+            ...+.+.|++++|.+.|++..
T Consensus       299 ~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al  378 (1157)
T PRK11447        299 NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQAR  378 (1157)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            444445566777888899999999999998765321     122222            345678899999999999998


Q ss_pred             hcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHH-------------------------------
Q 040580           72 SEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDL-------------------------------  120 (412)
Q Consensus        72 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-------------------------------  120 (412)
                      +.. +.+...+..+...+...|++++|++.|++..+.. +.+...+..+                               
T Consensus       379 ~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~  456 (1157)
T PRK11447        379 QVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIE  456 (1157)
T ss_pred             HhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHH
Confidence            863 3456777788899999999999999999998754 3333333322                               


Q ss_pred             -----------HHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHH
Q 040580          121 -----------MDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNA  189 (412)
Q Consensus       121 -----------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  189 (412)
                                 ...+...|++++|.+.|++..+.. +-++..+..+...|.+.|++++|...+++..+.... +...+..
T Consensus       457 ~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a  534 (1157)
T PRK11447        457 RSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYA  534 (1157)
T ss_pred             HHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHH
Confidence                       334456789999999999988765 446678888999999999999999999999875322 3344444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---------HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHH
Q 040580          190 FIIYYSRFGSLTEMETAYGRLKRSRHLIDKE---------GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLL  260 (412)
Q Consensus       190 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  260 (412)
                      +...+...++.++|...++.+......++..         .+..+...+...|++++|.++++.   .+.  +...+..+
T Consensus       535 ~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~---~p~--~~~~~~~L  609 (1157)
T PRK11447        535 YGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ---QPP--STRIDLTL  609 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh---CCC--CchHHHHH
Confidence            4556678899999999998875433222221         233456778889999999999883   222  33677888


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhccc
Q 040580          261 LLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAYLDKRL  339 (412)
Q Consensus       261 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~  339 (412)
                      ...+.+.|++++|+..|++..+.. +.+...+..+...+...|+.++|.+.++...+.  .| +......+..++...|+
T Consensus       610 a~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~  686 (1157)
T PRK11447        610 ADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGD  686 (1157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCC
Confidence            899999999999999999999763 334778889999999999999999999987653  33 45566677788889999


Q ss_pred             cchHHHHHHhc-cCCC-CCC----cccHHHHHHHHhc-CCcccHHHHHHHhc
Q 040580          340 GRNLDFGLSKM-NLDD-SPV----VSTDPYVFEAFGK-GDFHSSSEAFLEFK  384 (412)
Q Consensus       340 ~~~a~~~~~~m-~~~~-~p~----~~~~~~li~~~~~-~~~~~a~~~~~~~~  384 (412)
                      +++|.++++.+ .... .|.    ...+..+-..+.. |+.++|.+.+.+..
T Consensus       687 ~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        687 TAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999998 3322 121    1223333344544 99999999988754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.79  E-value=2.6e-15  Score=148.57  Aligned_cols=380  Identities=9%  Similarity=-0.050  Sum_probs=205.8

Q ss_pred             cccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF   94 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~   94 (412)
                      -.+......|+.++|++++.....   .+...+..+...+...|++++|.++|++..+.. +.+...+..+...+...|+
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCC
Confidence            344556678888888888888764   244457888888888899999999998887752 3356667777788888899


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKE  174 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  174 (412)
                      +++|...+++..+.. +.+.. +..+..++...|+.++|+..++++.+.. +-++..+..+...+...|..++|+..++.
T Consensus        99 ~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~  175 (765)
T PRK10049         99 YDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDD  175 (765)
T ss_pred             HHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHh
Confidence            999999888888763 55566 8888888888899999999998887765 44556666677777777777777766654


Q ss_pred             HHHCCCCCCh------HHHHHHHHHHH-----hcCCH---HHHHHHHHHHHhC-CCCCCHH-HHH----HHHHHHHhccc
Q 040580          175 MVSRGFSVDS------ATGNAFIIYYS-----RFGSL---TEMETAYGRLKRS-RHLIDKE-GIR----AVSFTYLKERK  234 (412)
Q Consensus       175 m~~~g~~p~~------~~~~~li~~~~-----~~g~~---~~a~~~~~~~~~~-~~~~~~~-~~~----~li~~~~~~~~  234 (412)
                      ...   .|+.      .....++....     ..+++   ++|...++.+.+. ...|+.. .+.    ..+.++...|+
T Consensus       176 ~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~  252 (765)
T PRK10049        176 ANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDR  252 (765)
T ss_pred             CCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhh
Confidence            432   1211      00111111111     11122   4455555555432 1112111 000    00223334455


Q ss_pred             HHHHHHHHHHHhcCCCC-cchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-----HhHHHHHHHHHHccCChhHH
Q 040580          235 FFMLGEFLRDVGLGRKD-LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-----LTTFNIRAVAFSRMSMFWDL  308 (412)
Q Consensus       235 ~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~g~~~~a  308 (412)
                      +++|...|+.+...++. |+ ..-..+..+|...|++++|+..|+++.+.  .|.     ......+..++...|++++|
T Consensus       253 ~~eA~~~~~~ll~~~~~~P~-~a~~~la~~yl~~g~~e~A~~~l~~~l~~--~p~~~~~~~~~~~~L~~a~~~~g~~~eA  329 (765)
T PRK10049        253 YKDVISEYQRLKAEGQIIPP-WAQRWVASAYLKLHQPEKAQSILTELFYH--PETIADLSDEELADLFYSLLESENYPGA  329 (765)
T ss_pred             HHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHhcCCcHHHHHHHHHHhhc--CCCCCCCChHHHHHHHHHHHhcccHHHH
Confidence            55555555554433321 11 11111344555555555555555555432  111     12233444455555555555


Q ss_pred             HHHHHHHHhCC-----------CCCC---HhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCc
Q 040580          309 HLSLEHMKHES-----------VGPD---LVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDF  373 (412)
Q Consensus       309 ~~~~~~m~~~g-----------~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~  373 (412)
                      ..+++.+.+..           -.|+   ...+..+...+...|+.++|.+.++++....+-+...+..+...+.. |+.
T Consensus       330 ~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~  409 (765)
T PRK10049        330 LTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWP  409 (765)
T ss_pred             HHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH
Confidence            55555554321           0112   11223334444555555555555555521111122223333333333 555


Q ss_pred             ccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          374 HSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       374 ~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      ++|.+.+++...   .+...+..++..+.+.|++++|
T Consensus       410 ~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A  446 (765)
T PRK10049        410 RAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQM  446 (765)
T ss_pred             HHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHH
Confidence            555555554322   3344455555555555555554

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

Probab=99.78  E-value=2.3e-16  Score=141.19  Aligned_cols=375  Identities=11%  Similarity=0.031  Sum_probs=269.5

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHH-HHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCA-LMLCY   89 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~~   89 (412)
                      ..|..+...+-..|++++|...++.+.+.   .+..|..+..++...|+.+.|.+.|.+..+.  .|+.....+ +....
T Consensus       117 e~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  117 EAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHH
Confidence            33555667777888888888888887653   5677888888888888888888888888764  565443332 33444


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHH
Q 040580           90 ANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELME  169 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  169 (412)
                      -..|++++|..-|.+.++.. +-=...|+.|...+-..|+.-.|++.|++....+ +--++.|-.|-..|...+.+++|+
T Consensus       195 ka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Av  272 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAV  272 (966)
T ss_pred             HhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHH
Confidence            45678888888777777643 2234678888888888888888888888876433 222458888888888888888888


Q ss_pred             HHHHHHHHCCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcccHHHHHHHHHHHhc
Q 040580          170 NTLKEMVSRGFSVD-SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLID-KEGIRAVSFTYLKERKFFMLGEFLRDVGL  247 (412)
Q Consensus       170 ~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~  247 (412)
                      ..+.+....  .|+ ...+..+...|-..|.++.|...+++..+..  |+ +..|+.|..++...|++.+|.+.+.+.-.
T Consensus       273 s~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~--P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  273 SCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ--PNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC--CCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            888777653  454 4667777777888888888888888877653  44 66788888888888888888888887433


Q ss_pred             CCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-Hh
Q 040580          248 GRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPD-LV  325 (412)
Q Consensus       248 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~  325 (412)
                      -.+. -..+.+.|...|...|.+++|..+|....+-  .|. ...++.|...|-++|++++|...|++.++  ++|+ ..
T Consensus       349 l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAd  423 (966)
T KOG4626|consen  349 LCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFAD  423 (966)
T ss_pred             hCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHH
Confidence            3222 1367888888888888888888888877753  565 56778888888888888888888888765  6675 46


Q ss_pred             hHHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHH---hccCchHHHHHHHHHHHH
Q 040580          326 TYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLE---FKRQRKWTYRKLIAVYLK  400 (412)
Q Consensus       326 ~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~---~~~~~~~~~~~l~~~~~~  400 (412)
                      .|+.+-..|-..|+...|.+.+... ...+ --...++.|-..|.. |+..+|+.-+.+   ++|.-+..|..++.++--
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nP-t~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~  502 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINP-TFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQI  502 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCc-HHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHH
Confidence            7777777888888888888877776 3332 123335566667766 888888877765   344456667666666554


Q ss_pred             cC
Q 040580          401 KQ  402 (412)
Q Consensus       401 ~g  402 (412)
                      ..
T Consensus       503 vc  504 (966)
T KOG4626|consen  503 VC  504 (966)
T ss_pred             Hh
Confidence            33

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.77  E-value=3.9e-15  Score=147.36  Aligned_cols=362  Identities=10%  Similarity=-0.020  Sum_probs=265.6

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYA   90 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~   90 (412)
                      ..+..+...+.+.|++++|...+++..+   .+...+..+...+...|++++|+..+++..+.. +.+.. +..+..++.
T Consensus        50 ~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~  127 (765)
T PRK10049         50 RGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYK  127 (765)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHH
Confidence            3466777788999999999999999643   356678888889999999999999999998863 44566 888889999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCH------HhHHHHHHHHH----
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLP------EVYSRAISCFG----  160 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~li~~~~----  160 (412)
                      ..|+.++|...++++.+.. +.+...+..+..++...+..+.|++.++....   .|+.      .....++....    
T Consensus       128 ~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~  203 (765)
T PRK10049        128 RAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTR  203 (765)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhccccc
Confidence            9999999999999999875 55677777888899999999999999987653   1111      11222222222    


Q ss_pred             -hcCCh---HHHHHHHHHHHHC-CCCCChH-HHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHH
Q 040580          161 -KQGQL---ELMENTLKEMVSR-GFSVDSA-TGN----AFIIYYSRFGSLTEMETAYGRLKRSRHL-IDKEGIRAVSFTY  229 (412)
Q Consensus       161 -~~g~~---~~a~~~~~~m~~~-g~~p~~~-~~~----~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~  229 (412)
                       ..+++   ++|+..++.+.+. ...|+.. .+.    ..+.++...|++++|...|+.+.+.+.+ |+. ....+..+|
T Consensus       204 ~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~y  282 (765)
T PRK10049        204 SEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAY  282 (765)
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHH
Confidence             22234   7788899988864 2233321 111    1134556779999999999999987632 332 223357789


Q ss_pred             HhcccHHHHHHHHHHHhcCCCCc---chHHHHHHHHHHhcCCChHHHHHHHHHHHHcC-----------CCCcH---hHH
Q 040580          230 LKERKFFMLGEFLRDVGLGRKDL---GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG-----------FHPDL---TTF  292 (412)
Q Consensus       230 ~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----------~~p~~---~~~  292 (412)
                      ...|++++|...++++....+..   .......+..++...|++++|..+++.+.+..           -.|+.   ..+
T Consensus       283 l~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~  362 (765)
T PRK10049        283 LKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQ  362 (765)
T ss_pred             HhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHH
Confidence            99999999999999875433221   12456677778899999999999999998642           11332   245


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCCccc--HHHHHHHHh
Q 040580          293 NIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVST--DPYVFEAFG  369 (412)
Q Consensus       293 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~--~~~li~~~~  369 (412)
                      ..+...+...|+.++|.++++++.... +-+...+..+...+...|++++|.+.+++. ...  |+...  +...+.+..
T Consensus       363 ~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al~  439 (765)
T PRK10049        363 SLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTALD  439 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHH
Confidence            567778899999999999999987642 235778888888999999999999999998 433  44322  233333345


Q ss_pred             cCCcccHHHHHHHhcc
Q 040580          370 KGDFHSSSEAFLEFKR  385 (412)
Q Consensus       370 ~~~~~~a~~~~~~~~~  385 (412)
                      .+++++|..+++++..
T Consensus       440 ~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        440 LQEWRQMDVLTDDVVA  455 (765)
T ss_pred             hCCHHHHHHHHHHHHH
Confidence            5999999999998765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=8.3e-14  Score=135.91  Aligned_cols=182  Identities=9%  Similarity=0.031  Sum_probs=130.3

Q ss_pred             cccCCCChHHHHHHHHHhhccChh---hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           22 HQTHPKNGDLARKIIRYRKQEGFV---DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEA   98 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a   98 (412)
                      ...+.|+++.|+..|++..+.++.   ....++..+...|+.++|+..+++.... -.........+...+...|++++|
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            356899999999999988764332   2337888888889999999999988721 122333344445678888999999


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580           99 QVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus        99 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      .++|+.+.+.. +-+...+..++..+.+.++.++|++.++++....  |+...+-.++..+...++..+|+..++++.+.
T Consensus       122 iely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        122 LALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            99999999875 5567777888889999999999999999986543  33334433333333456666699999999886


Q ss_pred             CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040580          179 GFSV-DSATGNAFIIYYSRFGSLTEMETAYGR  209 (412)
Q Consensus       179 g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~  209 (412)
                      .  | +...+..+..+..+.|-...|.++..+
T Consensus       199 ~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~  228 (822)
T PRK14574        199 A--PTSEEVLKNHLEILQRNRIVEPALRLAKE  228 (822)
T ss_pred             C--CCCHHHHHHHHHHHHHcCCcHHHHHHHHh
Confidence            3  4 455666777777777776666655543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=2.4e-14  Score=123.04  Aligned_cols=302  Identities=10%  Similarity=0.012  Sum_probs=201.5

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHH
Q 040580           76 LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRA  155 (412)
Q Consensus        76 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  155 (412)
                      +-+..|+.++|.+.|+-...+.|.++|++-.....+.+..+||.+|.+-+-..    -.+++.+|....+.||..|+|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHH
Confidence            34667888888888888888888888887776666778888888877644322    26677788777778888888888


Q ss_pred             HHHHHhcCChHH----HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH-HHHHHHHHHh----CCCCC----CHHHH
Q 040580          156 ISCFGKQGQLEL----MENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTE-METAYGRLKR----SRHLI----DKEGI  222 (412)
Q Consensus       156 i~~~~~~g~~~~----a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~----~~~~~----~~~~~  222 (412)
                      +++..+.|+++.    |++++.+|++-|+.|...+|..+|..+++.++..+ +..++.++..    ..++|    |..-|
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            888888887654    45667778888888888888888888887777643 4444444432    12222    34456


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHhcC------CCCc-chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          223 RAVSFTYLKERKFFMLGEFLRDVGLG------RKDL-GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       223 ~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                      ...+..|.+..+.+-|.++-.-....      ++.. ...-|..+..+.|+....+.-...|+.|.-.-.-|+..+...+
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            66667777777766666654433111      0100 1234556667777777888888888888876677888899999


Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcc-ccc-----h--------H---HHHH----Hhc-cCC
Q 040580          296 AVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKR-LGR-----N--------L---DFGL----SKM-NLD  353 (412)
Q Consensus       296 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~-~~~-----~--------a---~~~~----~~m-~~~  353 (412)
                      ++|....|.++-..++|..++..|.........-++.-+++.+ .+.     +        |   .+.+    ..| ...
T Consensus       440 lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~  519 (625)
T KOG4422|consen  440 LRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQD  519 (625)
T ss_pred             HHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhcc
Confidence            9999999999999999999988886666555555666666544 110     0        1   1111    222 222


Q ss_pred             CCCCcccHHHHHHHHhc-CCcccHHHHHHHh
Q 040580          354 DSPVVSTDPYVFEAFGK-GDFHSSSEAFLEF  383 (412)
Q Consensus       354 ~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~  383 (412)
                      .  .....+.+.-.+.+ |++++|.++|.-+
T Consensus       520 ~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~  548 (625)
T KOG4422|consen  520 W--PATSLNCIAILLLRAGRTQKAWEMLGLF  548 (625)
T ss_pred             C--ChhHHHHHHHHHHHcchHHHHHHHHHHH
Confidence            2  23334555555666 9999999999877

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

Probab=99.74  E-value=3.1e-15  Score=134.11  Aligned_cols=351  Identities=11%  Similarity=0.010  Sum_probs=273.6

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHH-HHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQV-LSDLMD  122 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~li~  122 (412)
                      ..+|..+...+...|++++|+.+++.+.+.. +-....|..+..++...|+.+.|.+.|.+.++.  .|+... .+.+..
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhH
Confidence            3468888889999999999999999998863 225778999999999999999999999988875  465443 334445


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCCHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD-SATGNAFIIYYSRFGSLT  201 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~  201 (412)
                      ..-..|++.+|...+.+..+.. +.-...|+.|-..+..+|+...|+..|++..+-  .|+ ...|-.|-..|...+.++
T Consensus       193 Llka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcch
Confidence            5556789999999988887654 223448999999999999999999999998874  554 357888889999999999


Q ss_pred             HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHH
Q 040580          202 EMETAYGRLKRSRHLID-KEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRM  280 (412)
Q Consensus       202 ~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  280 (412)
                      +|...+......  .|+ ...+..+...|...|++|-|...+++.-...++. ..+|+.|..++-..|++.+|.+.+.+.
T Consensus       270 ~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F-~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  270 RAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNF-PDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             HHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCc-hHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            999998877654  454 5667777778888999999999999865554443 389999999999999999999999988


Q ss_pred             HHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhccccchHHHHHHhccCCCCCC-
Q 040580          281 SEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPD-LVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPV-  357 (412)
Q Consensus       281 ~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~-  357 (412)
                      ...  .|+ ..+.+.|...+...|.+++|..+|....+  +.|. ...++.|...|-..|+.++|...+++.- .++|+ 
T Consensus       347 L~l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal-rI~P~f  421 (966)
T KOG4626|consen  347 LRL--CPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL-RIKPTF  421 (966)
T ss_pred             HHh--CCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH-hcCchH
Confidence            765  565 56788899999999999999999988765  4453 5667888888989999999999998872 13343 


Q ss_pred             cccHHHHHHHHhc-CCcccHHHHHHHhccC---chHHHHHHHHHHHHcCcccccc
Q 040580          358 VSTDPYVFEAFGK-GDFHSSSEAFLEFKRQ---RKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       358 ~~~~~~li~~~~~-~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                      ...|+.+-..|.. |+...|..-+.+....   -....+.|.+.|-..|+..+|+
T Consensus       422 Ada~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI  476 (966)
T KOG4626|consen  422 ADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAI  476 (966)
T ss_pred             HHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHH
Confidence            2345555556655 8888888888775543   3556888888888899887773

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.72  E-value=2.2e-13  Score=132.99  Aligned_cols=350  Identities=12%  Similarity=0.022  Sum_probs=259.4

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCH--HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGLLPDN--STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ...+.|+++.|++.|++..+.  .|+.  ..+ .++..+...|+.++|...+++..... +........+...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCH
Confidence            456899999999999999876  4553  344 88888889999999999999998321 33344455557789999999


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                      ++|.++|+++.+.. +-++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|...++++
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            99999999998876 566788888899999999999999999999886  566666655555555566776799999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHH----------------------------------------------
Q 040580          211 KRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRD----------------------------------------------  244 (412)
Q Consensus       211 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~----------------------------------------------  244 (412)
                      .+.. +-+...+..++.++.+.|-...|.++..+                                              
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~  274 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADY  274 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHH
Confidence            9875 33566667777777666554444443332                                              


Q ss_pred             --Hhc-CCCCcc-----hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHH
Q 040580          245 --VGL-GRKDLG-----NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       245 --~~~-~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                        +.. -+..|.     ..+.--.+-++...|+..++++.|+.|...|.+....+-..+..+|...+++++|..++..+.
T Consensus       275 ~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~  354 (822)
T PRK14574        275 QNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLY  354 (822)
T ss_pred             HHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence              111 011111     111223356778889999999999999988865445577789999999999999999999986


Q ss_pred             hCC-----CCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCC------------CCcc--c-HHHHHHHHhc-CCccc
Q 040580          317 HES-----VGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDS------------PVVS--T-DPYVFEAFGK-GDFHS  375 (412)
Q Consensus       317 ~~g-----~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~------------p~~~--~-~~~li~~~~~-~~~~~  375 (412)
                      ...     ..++......|.-+|...+++++|..+++.+....+            |+..  . +..+...+.. |+..+
T Consensus       355 ~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~  434 (822)
T PRK14574        355 YSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPT  434 (822)
T ss_pred             hccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHH
Confidence            643     233444457889999999999999999999933211            2211  1 2233444555 99999


Q ss_pred             HHHHHHHhcc---CchHHHHHHHHHHHHcCcccccccc
Q 040580          376 SSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQIFW  410 (412)
Q Consensus       376 a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~w  410 (412)
                      |.+.++++..   .|......+.+.+...|+.++|+-|
T Consensus       435 Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~  472 (822)
T PRK14574        435 AQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQE  472 (822)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            9999998754   7899999999999999999988543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=9.8e-13  Score=120.47  Aligned_cols=280  Identities=10%  Similarity=-0.022  Sum_probs=214.0

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHh-HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHH--HHHHHHHccCCHHHH
Q 040580           57 KKKPHLAHQLVNTVKSEGLLPDNST-LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLS--DLMDAYGRIGCFNEI  133 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~li~~~~~~~~~~~a  133 (412)
                      .|+++.|.+.+....+.+  +++.. |.....+..+.|+++.+...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            699999998888766542  23333 333345557899999999999999875  45554332  346788889999999


Q ss_pred             HHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh-------HHHHHHHHHHHhcCCHHHHHHH
Q 040580          134 ISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS-------ATGNAFIIYYSRFGSLTEMETA  206 (412)
Q Consensus       134 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~a~~~  206 (412)
                      .+.++++.+.+ +-++.....+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999998766 567778899999999999999999999999988665322       2344455555555667777777


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC
Q 040580          207 YGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFH  286 (412)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  286 (412)
                      ++.+.+. .+.++.....+..++...|+.++|.+.+++.-..++++    --.++.+....++.++++...+...+.  .
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~----~l~~l~~~l~~~~~~~al~~~e~~lk~--~  324 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDE----RLVLLIPRLKTNNPEQLEKVLRQQIKQ--H  324 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH----HHHHHHhhccCCChHHHHHHHHHHHhh--C
Confidence            7776543 34578888999999999999999999998875544433    122344555669999999999998866  5


Q ss_pred             Cc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          287 PD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       287 p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      |+ ...+..+...+.+.+++++|.+.|+...+  ..|+..++..+...+.+.|+.++|.+.+++-
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55 45677888899999999999999999877  5689999889999999999999999998875

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=1.7e-12  Score=118.91  Aligned_cols=278  Identities=13%  Similarity=0.028  Sum_probs=136.1

Q ss_pred             CCChHHHHHHHHHhhcc--ChhhHH-HHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHH--HHHHHHHhcCChHHHHH
Q 040580           26 PKNGDLARKIIRYRKQE--GFVDCA-SLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLC--ALMLCYANNGFVLEAQV  100 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~--~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~  100 (412)
                      .|+++.|++.+...++.  ++..+. ....+..+.|+++.|.+.|.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            45566665555554432  112222 2222334556666666666665543  33432222  22344555566666666


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHh--------HHHHHHHHHhcCChHHHHHHH
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEV--------YSRAISCFGKQGQLELMENTL  172 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~--------~~~li~~~~~~g~~~~a~~~~  172 (412)
                      .++.+.+.. |-+......+...|.+.|++++|.+++..+.+.+.. ++..        |..++.......+.+...+++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVG-DEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            666655544 334555555566666666666666666666554432 2221        122222222333344444444


Q ss_pred             HHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc
Q 040580          173 KEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL  252 (412)
Q Consensus       173 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  252 (412)
                      +.+.+. .+.+......+...+...|+.++|..++++..+.  .|++...  ++.+....++.+++.+..+......++ 
T Consensus       253 ~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~-  326 (398)
T PRK10747        253 KNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD-  326 (398)
T ss_pred             HhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC-
Confidence            444222 1224445555555566666666666666555542  2333111  222223345555555555554443333 


Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      |...+.++...+.+.+++++|...|+...+.  .|+..++..+...+.+.|+.++|.+++++-
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2345555556666666666666666665543  455555555666666666666665555543

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

Probab=99.62  E-value=5.1e-15  Score=129.56  Aligned_cols=256  Identities=15%  Similarity=0.067  Sum_probs=63.5

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLP-DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC  129 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  129 (412)
                      ...+.+.|++++|++++++......+| +...|..+...+...++.+.|...|+.+.+.+ +-+...+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccc
Confidence            344445555555555554333222122 22233333334444555555555555555543 2234444444444 45555


Q ss_pred             HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 040580          130 FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG-FSVDSATGNAFIIYYSRFGSLTEMETAYG  208 (412)
Q Consensus       130 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~  208 (412)
                      +++|.+++++.-++  .+++..+..++..+.+.++++++.+++++..... ..++...|..+...+.+.|+.++|...++
T Consensus        93 ~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   93 PEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             cccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55555555544322  2344445555555555555555555555544322 22344445555555555555555555555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC-CCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC
Q 040580          209 RLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR-KDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP  287 (412)
Q Consensus       209 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  287 (412)
                      +..+.. +-|....+.++..+...|+.+++.+++....... .++  ..+..+..+|...|+.++|+..|++..+.. +.
T Consensus       171 ~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~--~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  171 KALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDP--DLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             HHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSC--CHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHH--HHHHHHHHHhcccccccccccccccccccc-cc
Confidence            555443 1134444444555555555554444444332221 111  344555555555555555555555554431 22


Q ss_pred             cHhHHHHHHHHHHccCChhHHHHHHHH
Q 040580          288 DLTTFNIRAVAFSRMSMFWDLHLSLEH  314 (412)
Q Consensus       288 ~~~~~~~ll~~~~~~g~~~~a~~~~~~  314 (412)
                      |......+..++...|+.++|..+..+
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~  273 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQ  273 (280)
T ss_dssp             -HHHHHHHHHHHT--------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            344444555555555555555555443

>TIGR00540 hemY_coli hemY protein

Probab=99.62  E-value=4.1e-12  Score=117.06  Aligned_cols=299  Identities=10%  Similarity=-0.072  Sum_probs=202.2

Q ss_pred             HHHHHHHH--hcCCChhHHHHHHHHHHhcCCCCCHHh-HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           47 CASLVEDL--GRKKKPHLAHQLVNTVKSEGLLPDNST-LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        47 ~~~li~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...+.++.  ...|+++.|.+.+.+..+.  .|+... +-....+..+.|+.+.|.+.++...+....+...+.-.....
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l  162 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRI  162 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHH
Confidence            33444443  3568999999999887665  455433 344566777889999999999888765322222344445778


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH---HhcCCH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY---SRFGSL  200 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~---~~~g~~  200 (412)
                      +...|+++.|.+.++.+.+.. +-++.++..+...+...|++++|.+.+..+.+.++.++......-..++   ...+..
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~  241 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMA  241 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            888999999999999998775 5677788888999999999999999999998887543222211111111   222222


Q ss_pred             HHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHH-HHHHHHHHhcCCChHHHHHH
Q 040580          201 TEMETAYGRLKRSRH---LIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLL-WNLLLLSYAGNFKMKSLQRE  276 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~  276 (412)
                      +.+.+.+..+.+...   +.++..+..+...+...|+.++|.+.+++.-...++..... ...........++.+.+...
T Consensus       242 ~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~  321 (409)
T TIGR00540       242 DEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKL  321 (409)
T ss_pred             hcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHH
Confidence            223334444443321   23778888888889999999999998888655444431111 12222223345777888888


Q ss_pred             HHHHHHcCCCCcHh---HHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          277 FMRMSEAGFHPDLT---TFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       277 ~~~m~~~~~~p~~~---~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      ++...+.  .|+..   ...++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++-
T Consensus       322 ~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       322 IEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8877754  45543   445777788888999999998886555556788888888888888899999998888764

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.

>TIGR00540 hemY_coli hemY protein

Probab=99.61  E-value=5.5e-12  Score=116.21  Aligned_cols=288  Identities=11%  Similarity=-0.008  Sum_probs=211.8

Q ss_pred             cCCCChHHHHHHHHHhhcc--C-hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHH--hHHHHHHHHHhcCChHHH
Q 040580           24 THPKNGDLARKIIRYRKQE--G-FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNS--TLCALMLCYANNGFVLEA   98 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~--~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a   98 (412)
                      ...|+++.|.+.+....+.  + ...+-....+..+.|+.+.|.+.+.+..+.  .|+..  .--.....+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHH
Confidence            4689999999999887663  2 223444456677889999999999998765  34543  334457778889999999


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHH-HHHH---HHHhcCChHHHHHHHHH
Q 040580           99 QVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYS-RAIS---CFGKQGQLELMENTLKE  174 (412)
Q Consensus        99 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~li~---~~~~~g~~~~a~~~~~~  174 (412)
                      ...++.+.+.. |-+..++..+...+.+.|+++.|.+.++.+.+.++ +++..+. .-..   +....+..+++.+.+..
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~-~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGL-FDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            99999999986 56778999999999999999999999999998874 4444342 1122   22333344444455555


Q ss_pred             HHHCCC---CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcccHHHHHHHHHHHhcCC
Q 040580          175 MVSRGF---SVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFT--YLKERKFFMLGEFLRDVGLGR  249 (412)
Q Consensus       175 m~~~g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~  249 (412)
                      +.+...   +.+...+..+...+...|+.++|..+++...+.........+. ++..  ....++.+.+.+.++......
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~-~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLP-LCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhH-HHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            555422   1267788889999999999999999999999865322211111 2222  234577888888888765444


Q ss_pred             CC-cchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHH
Q 040580          250 KD-LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       250 ~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                      ++ ++.....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|++-.
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            43 22256778899999999999999999964444458999999999999999999999999998753

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.

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

Probab=99.60  E-value=1.2e-14  Score=127.16  Aligned_cols=260  Identities=15%  Similarity=0.013  Sum_probs=111.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCC-CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc
Q 040580           84 ALMLCYANNGFVLEAQVVWEELLSSS-FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ  162 (412)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  162 (412)
                      .+...+.+.|++++|.++++...... .+.|...|..+.......++.+.|.+.++++...+ +-++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            45777889999999999996655443 24456666777778888999999999999998776 3467788888877 799


Q ss_pred             CChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcccHHHHHHH
Q 040580          163 GQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR-HLIDKEGIRAVSFTYLKERKFFMLGEF  241 (412)
Q Consensus       163 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~  241 (412)
                      +++++|.+++.+..+..  ++...+..++..+.+.++++++..+++.+.... .+.+...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999998876653  566677888899999999999999999987543 356788899999999999999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCC
Q 040580          242 LRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVG  321 (412)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~  321 (412)
                      +++.-...|+ |....+.++..+...|+.+++..+++...+.. +.|...+..+..++...|+.++|...+++..+.. +
T Consensus       169 ~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p  245 (280)
T PF13429_consen  169 YRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-P  245 (280)
T ss_dssp             HHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-c
Confidence            9987555554 45788999999999999999999999888653 4556677889999999999999999999987632 2


Q ss_pred             CCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          322 PDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       322 p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      .|+.....+.+++...|+.++|.++..+.
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             T-HHHHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            37888889999999999999999988765

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.60  E-value=5.6e-11  Score=118.79  Aligned_cols=365  Identities=9%  Similarity=-0.097  Sum_probs=214.2

Q ss_pred             CChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhc-C-CCCCHHhHHHHHHHHHhcCC---hHHH
Q 040580           27 KNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSE-G-LLPDNSTLCALMLCYANNGF---VLEA   98 (412)
Q Consensus        27 ~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g-~~p~~~~~~~ll~~~~~~~~---~~~a   98 (412)
                      +...++.+.+..+.+.   +....-.+--...+.|+.++|.++|+..... + -.++.....-|+..|.+.+.   ..++
T Consensus       356 ~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  435 (987)
T PRK09782        356 RNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKV  435 (987)
T ss_pred             CchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHH
Confidence            3344444444444332   3333333333456677788888888777652 1 22333444466666666654   2222


Q ss_pred             HHH----------------------HHHHHh-CCC-Cc--CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhH
Q 040580           99 QVV----------------------WEELLS-SSF-VL--SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVY  152 (412)
Q Consensus        99 ~~~----------------------~~~m~~-~~~-~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  152 (412)
                      ..+                      ++...+ .+. ++  +...|..+..++.. ++.++|...+.+.....  |+....
T Consensus       436 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~  512 (987)
T PRK09782        436 AILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQH  512 (987)
T ss_pred             HHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHH
Confidence            222                      111111 111 34  56777777777776 77777888777665443  332222


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE  232 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  232 (412)
                      ..+...+...|++++|...|+++...  .|+...+..+..++.+.|+.++|...++...+.. +.+...+..+...+...
T Consensus       513 L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~  589 (987)
T PRK09782        513 RAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIP  589 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhC
Confidence            22334445788888888888877554  3444445556667778888888888888887654 22333333344444456


Q ss_pred             ccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHH
Q 040580          233 RKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLS  311 (412)
Q Consensus       233 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~  311 (412)
                      |++++|...+++.....++  ...|..+...+.+.|++++|+..|++....  .|+ ...++.+..++...|+.++|...
T Consensus       590 Gr~~eAl~~~~~AL~l~P~--~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~  665 (987)
T PRK09782        590 GQPELALNDLTRSLNIAPS--ANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREM  665 (987)
T ss_pred             CCHHHHHHHHHHHHHhCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            8888888888876554443  467778888888888888888888887765  444 55666677778888888888888


Q ss_pred             HHHHHhCCCCC-CHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhcCCcccHHHHHHHhcc--Cc
Q 040580          312 LEHMKHESVGP-DLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKR--QR  387 (412)
Q Consensus       312 ~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~--~~  387 (412)
                      +++..+.  .| +...+..+-.++...|++++|...+++. ...+..-...+..-.-...+.++..|.+.+.+...  ++
T Consensus       666 l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        666 LERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence            8877663  33 4566777777888888888888888887 43332222222111111222555555555555433  33


Q ss_pred             hHHHHHHHHHHHHcCc
Q 040580          388 KWTYRKLIAVYLKKQL  403 (412)
Q Consensus       388 ~~~~~~l~~~~~~~g~  403 (412)
                      ..+.......+...++
T Consensus       744 ~~a~~~~g~~~~~~~~  759 (987)
T PRK09782        744 SSIGLRSGAMSTANNN  759 (987)
T ss_pred             chhccccchHhhhccc
Confidence            3333444444444433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.60  E-value=1.9e-11  Score=122.06  Aligned_cols=275  Identities=13%  Similarity=-0.039  Sum_probs=191.6

Q ss_pred             HHccCCHHHHHHHHHHHhhc--CCCCCHHhHHHHHHHHHhcCC---hHHHHHH----------------------HHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCR--NADLLPEVYSRAISCFGKQGQ---LELMENT----------------------LKEMV  176 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~---~~~a~~~----------------------~~~m~  176 (412)
                      ..+.|+.++|.++|++....  +..+++...+-++..|.+.+.   ..++..+                      .....
T Consensus       386 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (987)
T PRK09782        386 LMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIV  465 (987)
T ss_pred             HHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHH
Confidence            44567788888888877541  123344455567777777665   3333333                      11111


Q ss_pred             HC-CCCC---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc
Q 040580          177 SR-GFSV---DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL  252 (412)
Q Consensus       177 ~~-g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  252 (412)
                      .. +..|   +...+..+..++.. ++.++|...+.......  |+......+..++...|++++|...++++....+.+
T Consensus       466 ~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~  542 (987)
T PRK09782        466 RLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSN  542 (987)
T ss_pred             HhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCc
Confidence            11 1222   34566666666665 78888999777776554  565444445555678999999999999875554443


Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHH
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVV  331 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  331 (412)
                        ..+..+..++.+.|++++|...+++..+..  |+ ...+..+.......|++++|...+++..+.  .|+...+..+.
T Consensus       543 --~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA  616 (987)
T PRK09782        543 --EDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARA  616 (987)
T ss_pred             --HHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHH
Confidence              556677788899999999999999988753  44 333334444555669999999999998764  46788888899


Q ss_pred             HHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHh---ccCchHHHHHHHHHHHHcCcccc
Q 040580          332 DAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEF---KRQRKWTYRKLIAVYLKKQLRRN  406 (412)
Q Consensus       332 ~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~  406 (412)
                      ..+.+.|+.++|.+.+++. ...+ .+...+..+-..+.. |+.++|.+.+.+.   .|.++..+..+..++...|++++
T Consensus       617 ~~l~~lG~~deA~~~l~~AL~l~P-d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~e  695 (987)
T PRK09782        617 TIYRQRHNVPAAVSDLRAALELEP-NNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAA  695 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998 4332 233344444445655 9999999988864   45678899999999999999998


Q ss_pred             cc
Q 040580          407 QI  408 (412)
Q Consensus       407 a~  408 (412)
                      |.
T Consensus       696 A~  697 (987)
T PRK09782        696 TQ  697 (987)
T ss_pred             HH
Confidence            84

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

Probab=99.58  E-value=4.2e-11  Score=102.76  Aligned_cols=284  Identities=12%  Similarity=-0.012  Sum_probs=230.0

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHH
Q 040580           56 RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIIS  135 (412)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  135 (412)
                      -.|++.+|.++..+-.+.+-. ....|..-..+.-+.|+.+.+-++..+..+.--.++....-+..+.....|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            369999999999998887643 3445666677888899999999999999886436777888888899999999999999


Q ss_pred             HHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh-------HHHHHHHHHHHhcCCHHHHHHHHH
Q 040580          136 IIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS-------ATGNAFIIYYSRFGSLTEMETAYG  208 (412)
Q Consensus       136 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~  208 (412)
                      -+.++.+.+ +.++........+|.+.|++.....++..|.+.|+--+.       .+|..+++-....+..+.-...|+
T Consensus       175 ~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            999888766 667789999999999999999999999999999876543       568888888887777777777777


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHH-HcCCCC
Q 040580          209 RLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMS-EAGFHP  287 (412)
Q Consensus       209 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~p  287 (412)
                      +..+. .+.++..-.+++.-+..+|+.++|.++..+.-....++.    -...-.+.+-++.+.-.+..++-. ..+..|
T Consensus       254 ~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p  328 (400)
T COG3071         254 NQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP  328 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh
Confidence            76553 356778888899999999999999999998777777652    223345566778888777777655 444444


Q ss_pred             cHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          288 DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       288 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                        -.+.+|-..|.+.+.+.+|...|+...+  ..|+..+|+.+-+++.+.|++.++.+..++-
T Consensus       329 --~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~  387 (400)
T COG3071         329 --LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREA  387 (400)
T ss_pred             --hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Confidence              6777899999999999999999996555  6789999999999999999999999998876

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

Probab=99.57  E-value=3.3e-11  Score=100.46  Aligned_cols=297  Identities=13%  Similarity=0.028  Sum_probs=213.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCc--CHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS-FVL--SVQVLSDLMD  122 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~--~~~~~~~li~  122 (412)
                      .|-.=++.+ -+.+.++|.++|-+|.+.. +-+..+.-+|.+.|-+.|.++.|+++.+.+.++. ++-  -....-.|.+
T Consensus        38 ~Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~  115 (389)
T COG2956          38 DYVKGLNFL-LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGR  115 (389)
T ss_pred             HHHhHHHHH-hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHH
Confidence            344444433 3467899999999998752 3345566778899999999999999999998742 111  1234556778


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh----HHHHHHHHHHHhcC
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS----ATGNAFIIYYSRFG  198 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g  198 (412)
                      -|...|-+|.|+.+|..+.+.+ ..-+.....|+..|-...+|++|+++-+++.+.+-++..    ..|.-+...+....
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            8889999999999999998765 344558888999999999999999999999887655533    33555566666678


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHH
Q 040580          199 SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFM  278 (412)
Q Consensus       199 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  278 (412)
                      +++.|..++....+.+ +..+..-..+-+.....|++.+|.+.++.+....+..-..+...|..+|...|+.++....+.
T Consensus       195 ~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~  273 (389)
T COG2956         195 DVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLR  273 (389)
T ss_pred             hHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            8999999998888765 223444455667788889999999999988887777666788888899999999999999888


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---cccchHHHHHHhc
Q 040580          279 RMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDK---RLGRNLDFGLSKM  350 (412)
Q Consensus       279 ~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~m  350 (412)
                      ++.+.  .++...-..+-.......-.+.|..++.+-..  -+|+...+..+|+.-...   |...+-...+..|
T Consensus       274 ~~~~~--~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~--r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~m  344 (389)
T COG2956         274 RAMET--NTGADAELMLADLIELQEGIDAAQAYLTRQLR--RKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDM  344 (389)
T ss_pred             HHHHc--cCCccHHHHHHHHHHHhhChHHHHHHHHHHHh--hCCcHHHHHHHHHhhhccccccchhhhHHHHHHH
Confidence            88865  33443444444444444445666665554433  368888888888876543   3344444555555

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

Probab=99.54  E-value=2e-11  Score=115.35  Aligned_cols=386  Identities=10%  Similarity=0.038  Sum_probs=205.9

Q ss_pred             cccccccccCCCChHHHHHHHHHhhcc--C--hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQE--G--FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN   91 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~   91 (412)
                      +.-+.++|-..|++++|...+....+.  |  +..+--+...+.+.|+.+.+...|+..... .+-+..|..+|...|+.
T Consensus       310 ~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~-~p~~~etm~iLG~Lya~  388 (1018)
T KOG2002|consen  310 FYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ-LPNNYETMKILGCLYAH  388 (1018)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh-CcchHHHHHHHHhHHHh
Confidence            444445555555555555555544432  1  222334455555555555555555555543 12234455555555544


Q ss_pred             cC----ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHH----HhhcCCCCCHHhHHHHHHHHHhcC
Q 040580           92 NG----FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQ----VSCRNADLLPEVYSRAISCFGKQG  163 (412)
Q Consensus        92 ~~----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~----m~~~~~~~~~~~~~~li~~~~~~g  163 (412)
                      .+    ..+.|..+.....+.- +.|...|-.+...+-...-+.. +.+|..    +...+..+.|...|.+..-....|
T Consensus       389 ~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g  466 (1018)
T KOG2002|consen  389 SAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLG  466 (1018)
T ss_pred             hhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhc
Confidence            43    3334444444444332 3445555555554443332222 444432    223344466667777777777777


Q ss_pred             ChHHHHHHHHHHHHC---CCCCChH-------HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhc
Q 040580          164 QLELMENTLKEMVSR---GFSVDSA-------TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLID-KEGIRAVSFTYLKE  232 (412)
Q Consensus       164 ~~~~a~~~~~~m~~~---g~~p~~~-------~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~  232 (412)
                      ++..|...|+.....   ...+|..       -|| +....-..++.+.|.+.|..+.+..  |+ ...|..+...-...
T Consensus       467 ~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-larl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k  543 (1018)
T KOG2002|consen  467 NIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-LARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDK  543 (1018)
T ss_pred             ChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-HHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhc
Confidence            777777777666543   1122221       122 3334445556777777777766542  22 22233332222223


Q ss_pred             ccHHHHHHHHHHHh-cCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcHhHHHHHHHHHHc---------
Q 040580          233 RKFFMLGEFLRDVG-LGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG-FHPDLTTFNIRAVAFSR---------  301 (412)
Q Consensus       233 ~~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~---------  301 (412)
                      +...+|...++... ....+|  ..++.+...|.+...+..|..-|....+.- ..+|..+.-.|-+.|..         
T Consensus       544 ~~~~ea~~~lk~~l~~d~~np--~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~  621 (1018)
T KOG2002|consen  544 NNLYEASLLLKDALNIDSSNP--NARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNP  621 (1018)
T ss_pred             cCcHHHHHHHHHHHhcccCCc--HHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccCh
Confidence            55666666666642 233333  566666666766666666666565555321 12444444344443322         


Q ss_pred             ---cCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHH
Q 040580          302 ---MSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSS  377 (412)
Q Consensus       302 ---~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~  377 (412)
                         .+..++|+.+|....+... -|...-|-+--.++..|++..|..+|.++.....-...+|-.+-++|.. |.+..|+
T Consensus       622 ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AI  700 (1018)
T KOG2002|consen  622 EKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAI  700 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHH
Confidence               2345667777777665432 2555666666667778888888888888833222222234345556644 8888888


Q ss_pred             HHHHHhcc-----CchHHHHHHHHHHHHcCcccccccc
Q 040580          378 EAFLEFKR-----QRKWTYRKLIAVYLKKQLRRNQIFW  410 (412)
Q Consensus       378 ~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~w  410 (412)
                      +.+.....     .++....-|..++.++|.+.+|.-|
T Consensus       701 qmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~  738 (1018)
T KOG2002|consen  701 QMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEA  738 (1018)
T ss_pred             HHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHH
Confidence            88876433     4677778888888888888777544

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

Probab=99.53  E-value=1.8e-10  Score=98.95  Aligned_cols=281  Identities=11%  Similarity=0.019  Sum_probs=144.0

Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENT  171 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  171 (412)
                      .|++..|+++..+-.+.+ +.....|..-.++--..|+.+.+-+.+.+..+..-.++...+-+........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            456666666665555554 2223344444555555566666666666554432123333444455555556666666666


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-------HHHHHHHHHHhcccHHHHHHHHHH
Q 040580          172 LKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKE-------GIRAVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       172 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~~~~~~a~~~~~~  244 (412)
                      ++++.+.+.. ..........+|.+.|++.....+...+.+.|.-.+..       +|+.+++-....+..+.....++.
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            6665554333 34445555566666666666666666666655444332       455555555555555555555555


Q ss_pred             HhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh-CCCCCC
Q 040580          245 VGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH-ESVGPD  323 (412)
Q Consensus       245 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-~g~~p~  323 (412)
                      ....... ++..-.+++.-+.+.|+.++|.++.++..+++..|+    -..+-.+.+-++.+.-.+..+.-.+ .+..| 
T Consensus       255 ~pr~lr~-~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p-  328 (400)
T COG3071         255 QPRKLRN-DPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP-  328 (400)
T ss_pred             ccHHhhc-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh-
Confidence            4333222 124445555555566666666666655555544444    1122234444444444444443322 33333 


Q ss_pred             HhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHH
Q 040580          324 LVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLE  382 (412)
Q Consensus       324 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~  382 (412)
                       ..+.+|-..|.+.+.+.+|.++++.. ....|+..+|+.+-+++.+ |+..+|.+...+
T Consensus       329 -~L~~tLG~L~~k~~~w~kA~~~leaA-l~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e  386 (400)
T COG3071         329 -LLLSTLGRLALKNKLWGKASEALEAA-LKLRPSASDYAELADALDQLGEPEEAEQVRRE  386 (400)
T ss_pred             -hHHHHHHHHHHHhhHHHHHHHHHHHH-HhcCCChhhHHHHHHHHHHcCChHHHHHHHHH
Confidence             44455555555666666666666533 1233555556555555555 555555554443

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

Probab=99.52  E-value=2.6e-12  Score=119.95  Aligned_cols=254  Identities=14%  Similarity=0.121  Sum_probs=173.5

Q ss_pred             HHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC
Q 040580           65 QLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus        65 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      ..+-.+...|+.|+..||..+|.-||..|+++.|- +|.-|.-...+.+...|+.++.+..+.++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45667788889999999999999999999998888 8888888777888888999988888888877665          


Q ss_pred             CCCCHHhHHHHHHHHHhcCChHH---HHHHHHHHH----HCCCCCChHHHHH--------------HHHHHHhcCCHHHH
Q 040580          145 ADLLPEVYSRAISCFGKQGQLEL---MENTLKEMV----SRGFSVDSATGNA--------------FIIYYSRFGSLTEM  203 (412)
Q Consensus       145 ~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~m~----~~g~~p~~~~~~~--------------li~~~~~~g~~~~a  203 (412)
                       .|.+++|..|..+|...||+..   +.+.+....    ..|+.-...-+-.              .+.-..-.|.++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             6777899999999999888654   222222221    1222111111111              12222233444444


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhc-ccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          204 ETAYGRLKRSRHLIDKEGIRAVSFTYLKE-RKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      .+++..+...... .+...  ++.-+... ..+++..........   .++..+|.+.+.+-..+|+.+.|..++.+|++
T Consensus       159 lkll~~~Pvsa~~-~p~~v--fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWN-APFQV--FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCccccc-chHHH--HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            4444333222111 11111  12222221 223333333333322   45669999999999999999999999999999


Q ss_pred             cCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccc
Q 040580          283 AGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRL  339 (412)
Q Consensus       283 ~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  339 (412)
                      .|++.+.+-|..|+.+   .+...-+..+++-|...|+.|+..|+.-.+-.+...|.
T Consensus       233 ~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  233 KGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            9999999999998887   77888889999999999999999999988888877554

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

Probab=99.52  E-value=3.2e-10  Score=106.69  Aligned_cols=320  Identities=11%  Similarity=-0.010  Sum_probs=221.9

Q ss_pred             CCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 040580           26 PKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVW  102 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  102 (412)
                      .|++++|.+++.++.+.   +...|.+|...|-+.|+.+++...+-..-... +-|...|..+-....+.|+++.|.-.|
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            49999999999887753   66789999999999999999888775554432 446788888888888999999999999


Q ss_pred             HHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH----hHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          103 EELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE----VYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       103 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      .+.++.. +++...+---...|-+.|+...|.+-|.++.+...+.+-.    .--.++..+...++-+.|.+.++.....
T Consensus       231 ~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            9999876 6677776677788889999999999999887654211212    2223466677777778888888877663


Q ss_pred             C-CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---------------------------CCCHHHHHHHHHHHH
Q 040580          179 G-FSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH---------------------------LIDKEGIRAVSFTYL  230 (412)
Q Consensus       179 g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---------------------------~~~~~~~~~li~~~~  230 (412)
                      + -..+...++.++..+.+...++.+............                           .++..+ ..+.-++.
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~  388 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLV  388 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhh
Confidence            2 223556777888888888888888887777665221                           222222 11222222


Q ss_pred             h--cccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHH
Q 040580          231 K--ERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDL  308 (412)
Q Consensus       231 ~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a  308 (412)
                      .  .+...++...+-......+.-+...|.-+..+|...|++.+|+.+|..+...-.--+...|--+...|...|..++|
T Consensus       389 ~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A  468 (895)
T KOG2076|consen  389 HLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEA  468 (895)
T ss_pred             cccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHH
Confidence            2  23333333333332332243345778888888888888888888888888653334566777788888888888888


Q ss_pred             HHHHHHHHhCCCCCC-HhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          309 HLSLEHMKHESVGPD-LVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       309 ~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      .+.|.....  ..|+ ...--+|-..+.+.|+.++|.+.++.+
T Consensus       469 ~e~y~kvl~--~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~  509 (895)
T KOG2076|consen  469 IEFYEKVLI--LAPDNLDARITLASLYQQLGNHEKALETLEQI  509 (895)
T ss_pred             HHHHHHHHh--cCCCchhhhhhHHHHHHhcCCHHHHHHHHhcc
Confidence            888887765  2332 233334555567788888888888886

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

Probab=99.51  E-value=1.7e-10  Score=96.29  Aligned_cols=287  Identities=13%  Similarity=0.012  Sum_probs=217.7

Q ss_pred             CCChHHHHHHHHHhhccChhhHH---HHHHHHhcCCChhHHHHHHHHHHhcCCCCC---HHhHHHHHHHHHhcCChHHHH
Q 040580           26 PKNGDLARKIIRYRKQEGFVDCA---SLVEDLGRKKKPHLAHQLVNTVKSEGLLPD---NSTLCALMLCYANNGFVLEAQ   99 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~~~~~~~---~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~   99 (412)
                      +.+.++|...|-+|.+.|..++.   +|-+.|.+.|..++|+.+-..+..+.--+.   ......|.+-|...|-++.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            56789999999999987766655   677889999999999999999886421111   234455777888999999999


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH----hHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          100 VVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE----VYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       100 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      .+|..+.+.| .--.....-|+..|-...+|++|.++-+++...+-.+...    .|.-+...+....+++.|..++.+.
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            9999999865 3445678889999999999999999999887654322211    4555666666778999999999998


Q ss_pred             HHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchH
Q 040580          176 VSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNL  255 (412)
Q Consensus       176 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  255 (412)
                      .+...+ .+..=-.+-+.....|+++.|.+.++.+.+.+..--+.+...|..+|...|+.++...++.++......+  .
T Consensus       207 lqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~--~  283 (389)
T COG2956         207 LQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA--D  283 (389)
T ss_pred             HhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc--c
Confidence            886433 2333334567888999999999999999998877678899999999999999999999999987777665  4


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHcc---CChhHHHHHHHHHHhC
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRM---SMFWDLHLSLEHMKHE  318 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---g~~~~a~~~~~~m~~~  318 (412)
                      .-..+-..-......+.|...+.+-...  +|+...+..+|..-...   |...+-..+++.|...
T Consensus       284 ~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         284 AELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            4444444444455566676666655544  89999999999987643   4455566667777643

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

Probab=99.51  E-value=4.2e-10  Score=105.92  Aligned_cols=347  Identities=12%  Similarity=0.056  Sum_probs=254.2

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHH
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNE  132 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  132 (412)
                      .+++ |+.++|..++.+.++.. +.....|.+|...|-+.|+.+++...+-..-... +.|...|..+.....+.|.+++
T Consensus       149 lfar-g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  149 LFAR-GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHh-CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHH
Confidence            3444 99999999999999874 5578899999999999999999988775555443 6677999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHH----HHHHHHHhcCCHHHHHHHHH
Q 040580          133 IISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGN----AFIIYYSRFGSLTEMETAYG  208 (412)
Q Consensus       133 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~----~li~~~~~~g~~~~a~~~~~  208 (412)
                      |.-.|.+..+.+ +++-..+---+..|-+.|+...|.+.|.++.......|..-+.    .+++.+...++-+.|.+.++
T Consensus       226 A~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le  304 (895)
T KOG2076|consen  226 ARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALE  304 (895)
T ss_pred             HHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999998765 4555555556778899999999999999998864322333333    34556667777788988888


Q ss_pred             HHHhC-CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC---------------------------CCcchHHHHHH
Q 040580          209 RLKRS-RHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR---------------------------KDLGNLLWNLL  260 (412)
Q Consensus       209 ~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~~~~~~~~~l  260 (412)
                      ..... +-..+...++.++..+.+...++.+...+..+....                           ..++..+ --+
T Consensus       305 ~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl  383 (895)
T KOG2076|consen  305 GALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRL  383 (895)
T ss_pred             HHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhH
Confidence            77663 334566788899999999999999988887764411                           1111222 122


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHcCCCC--cHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcc
Q 040580          261 LLSYAGNFKMKSLQREFMRMSEAGFHP--DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKR  338 (412)
Q Consensus       261 i~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  338 (412)
                      +-++...+..+....+.....+..+.|  +...|.-+..+|.+.|++.+|+.++..+......-+...|--+.++|...|
T Consensus       384 ~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~  463 (895)
T KOG2076|consen  384 MICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELG  463 (895)
T ss_pred             hhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHh
Confidence            334444444445555556666665444  356788899999999999999999999987655556888999999999999


Q ss_pred             ccchHHHHHHhc-cCCCCCCcccHH-HHHHHHhc-CCcccHHHHHHHhccCc------------hHHHHHHHHHHHHcCc
Q 040580          339 LGRNLDFGLSKM-NLDDSPVVSTDP-YVFEAFGK-GDFHSSSEAFLEFKRQR------------KWTYRKLIAVYLKKQL  403 (412)
Q Consensus       339 ~~~~a~~~~~~m-~~~~~p~~~~~~-~li~~~~~-~~~~~a~~~~~~~~~~~------------~~~~~~l~~~~~~~g~  403 (412)
                      ..++|.+.|+.. ...  |+..--. .|-..+.+ |+.++|.+.+..+..||            ...-......|.+.|+
T Consensus       464 e~e~A~e~y~kvl~~~--p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk  541 (895)
T KOG2076|consen  464 EYEEAIEFYEKVLILA--PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGK  541 (895)
T ss_pred             hHHHHHHHHHHHHhcC--CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhh
Confidence            999999999998 322  2221111 22233444 99999999999876544            3344556667777777


Q ss_pred             ccc
Q 040580          404 RRN  406 (412)
Q Consensus       404 ~~~  406 (412)
                      .++
T Consensus       542 ~E~  544 (895)
T KOG2076|consen  542 REE  544 (895)
T ss_pred             HHH
Confidence            665

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

Probab=99.51  E-value=1.1e-10  Score=110.58  Aligned_cols=386  Identities=10%  Similarity=0.025  Sum_probs=249.8

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhccC------hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHH--hHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQEG------FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNS--TLCAL   85 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~l   85 (412)
                      ...+.|...|.-.|+++.+..+.+.+...+      ..+|..+.+++-..|++++|...|-+..+.  .|+..  .+.-|
T Consensus       271 ~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~Gl  348 (1018)
T KOG2002|consen  271 VALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGL  348 (1018)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccch
Confidence            344566667777888888888777766542      335777888888888888888888776654  34443  34457


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC----CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG----CFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      .+.+.+.|+++.+...|+.+.+.. +-+..|...|...|...+    ..+.|..++.+..+.. +.+...|-.+...+..
T Consensus       349 gQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  349 GQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ  426 (1018)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh
Confidence            788888888888888888888763 556677777777777665    4566666666665443 4455566666666555


Q ss_pred             cCChHHHHHHHHH----HHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCH------HHHHHHHHH
Q 040580          162 QGQLELMENTLKE----MVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS---RHLIDK------EGIRAVSFT  228 (412)
Q Consensus       162 ~g~~~~a~~~~~~----m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~------~~~~~li~~  228 (412)
                      .. ...++.+|..    |...+-.+.....|.+...+...|+++.|...|......   ...++.      .+--.+...
T Consensus       427 ~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  427 TD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             cC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence            43 3333666654    344555567788888888888888888888888877654   122222      122223334


Q ss_pred             HHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHH
Q 040580          229 YLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDL  308 (412)
Q Consensus       229 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a  308 (412)
                      +-..++++.|.+.+..+....+.. ...|--+...--..+...+|...+++..+.. ..|...++.+-..+.+...+..|
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkehp~Y-Id~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a  583 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEHPGY-IDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPA  583 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHCchh-HHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhccc
Confidence            444568888888888876666542 2333333322233467788888888877432 22333444455577777777777


Q ss_pred             HHHHHHHHhC-CCCCCHhhHHHHHHHHHh------------ccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCc
Q 040580          309 HLSLEHMKHE-SVGPDLVTYGCVVDAYLD------------KRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDF  373 (412)
Q Consensus       309 ~~~~~~m~~~-g~~p~~~~~~~li~~~~~------------~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~  373 (412)
                      .+-|....+. ...+|....-+|-+.|..            .+..++|.+.|.+. +..+ -|...-|-+--.++. |++
T Consensus       584 ~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~  662 (1018)
T KOG2002|consen  584 KKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRF  662 (1018)
T ss_pred             ccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCc
Confidence            7766655442 233676666666664443            23445667777766 3332 233322222223444 999


Q ss_pred             ccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          374 HSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       374 ~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      .+|..+|.+.++   .+..+|..+.++|..+|.|..|
T Consensus       663 ~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~A  699 (1018)
T KOG2002|consen  663 SEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLA  699 (1018)
T ss_pred             hHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHH
Confidence            999999999887   4779999999999999999887

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=1.7e-13  Score=85.00  Aligned_cols=49  Identities=22%  Similarity=0.443  Sum_probs=27.4

Q ss_pred             CcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 040580          287 PDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYL  335 (412)
Q Consensus       287 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  335 (412)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

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

Probab=99.46  E-value=2.5e-10  Score=99.46  Aligned_cols=356  Identities=10%  Similarity=0.006  Sum_probs=233.0

Q ss_pred             ccccccccCCCChHHHHHHHHHhhc--cChhh-HHHHHHHHhcCCChhHHHHHHHHHHhcCCCC------------CHHh
Q 040580           17 FNVPSHQTHPKNGDLARKIIRYRKQ--EGFVD-CASLVEDLGRKKKPHLAHQLVNTVKSEGLLP------------DNST   81 (412)
Q Consensus        17 ~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p------------~~~~   81 (412)
                      +.+...+.+.|.+++|+..|+...+  |+..+ +|.+| ++..-|+-++..+.|.+|+.....|            +...
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i-~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~l  358 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLII-CAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNL  358 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhh-hheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHH
Confidence            4555678889999999999887654  55554 45444 4445678888888888887543222            2222


Q ss_pred             HHHHH-----HHHHhcC--ChHHHHHHHHHHHhCCCCcCHH-------------HHH--------HHHHHHHccCCHHHH
Q 040580           82 LCALM-----LCYANNG--FVLEAQVVWEELLSSSFVLSVQ-------------VLS--------DLMDAYGRIGCFNEI  133 (412)
Q Consensus        82 ~~~ll-----~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~-------------~~~--------~li~~~~~~~~~~~a  133 (412)
                      .+..|     .-..+.+  +.+++.-.-..++.--+.|+-.             .+.        .-..-+.+.|+++.|
T Consensus       359 l~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~a  438 (840)
T KOG2003|consen  359 LNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGA  438 (840)
T ss_pred             HHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHH
Confidence            22222     1111111  1122221111222111222210             000        111236688999999


Q ss_pred             HHHHHHHhhcCCCCCHH-------------------------------hHHHHH-----HHHHhcCChHHHHHHHHHHHH
Q 040580          134 ISIIDQVSCRNADLLPE-------------------------------VYSRAI-----SCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       134 ~~~~~~m~~~~~~~~~~-------------------------------~~~~li-----~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      .+++.-....+-..-..                               -||.-.     +....+|++++|.+.+++...
T Consensus       439 ieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~  518 (840)
T KOG2003|consen  439 IEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALN  518 (840)
T ss_pred             HHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHc
Confidence            98888776544221111                               111110     111245889999999999887


Q ss_pred             CCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHH
Q 040580          178 RGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLW  257 (412)
Q Consensus       178 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  257 (412)
                      ..-......|++= -.+-..|++++|.+.|-.+... +.-+..+.-.+...|-...+..+|.+++.+....-++ |+...
T Consensus       519 ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~slip~-dp~il  595 (840)
T KOG2003|consen  519 NDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPN-DPAIL  595 (840)
T ss_pred             CchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCC-CHHHH
Confidence            6433333334432 3466789999999999776532 1346778888888899999999999999886544333 55889


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHH-h
Q 040580          258 NLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYL-D  336 (412)
Q Consensus       258 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-~  336 (412)
                      .-|...|-+.|+-..|.+.+-+--. -++-|..|...|..-|....-+++++.+|++.  .=++|+..-|..+|..|. +
T Consensus       596 skl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~eka--aliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  596 SKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKA--ALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHH--HhcCccHHHHHHHHHHHHHh
Confidence            9999999999999999887655432 24557888888888899998999999999875  348899999999888776 5


Q ss_pred             ccccchHHHHHHhccCCCCCCcccHHHHHHHHhcCCcccHHHH
Q 040580          337 KRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFHSSSEA  379 (412)
Q Consensus       337 ~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~~~~~~a~~~  379 (412)
                      .|++.+|.++++.+.....-|+.+...|++.++.-+..++.+.
T Consensus       673 sgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl~d~key  715 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLKDAKEY  715 (840)
T ss_pred             cccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccchhHHHH
Confidence            8999999999999977777788888888888877444444333

>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=7.4e-10  Score=96.86  Aligned_cols=281  Identities=10%  Similarity=0.040  Sum_probs=192.9

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC--CChHHHHHHHHHHHhc
Q 040580          120 LMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS--VDSATGNAFIIYYSRF  197 (412)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p~~~~~~~li~~~~~~  197 (412)
                      +..++-...+.+++.+-.+.....|++.++..-+....+.-...++++|+.+|+++.++..-  -|..+|+.++-.-...
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            34555566677777777777777776555554455555556778888999999888887321  1667888777554433


Q ss_pred             CCHHH-HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHH
Q 040580          198 GSLTE-METAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQRE  276 (412)
Q Consensus       198 g~~~~-a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  276 (412)
                      ..+.- |..++ .+-    +--+.|...+.+-|+-.++.++|...|++.-.-.+.. ..+|+.|..-|....+...|++-
T Consensus       313 skLs~LA~~v~-~id----KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~-~~aWTLmGHEyvEmKNt~AAi~s  386 (559)
T KOG1155|consen  313 SKLSYLAQNVS-NID----KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKY-LSAWTLMGHEYVEMKNTHAAIES  386 (559)
T ss_pred             HHHHHHHHHHH-Hhc----cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcch-hHHHHHhhHHHHHhcccHHHHHH
Confidence            32222 22222 111    2344577777778888888888888888754444432 47888888888888888889888


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhccccchHHHHHHhccCCCC
Q 040580          277 FMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDS  355 (412)
Q Consensus       277 ~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  355 (412)
                      +++..+-. +-|-..|-.|-++|.-.+...=|+-+|++...  ++| |...|.+|-++|.+.++.++|.+-|...-...+
T Consensus       387 YRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d  463 (559)
T KOG1155|consen  387 YRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD  463 (559)
T ss_pred             HHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc
Confidence            88888653 44677888888888888888888888887665  455 788888898999888888888888888732222


Q ss_pred             CCcccHHHHHHHHhc-CCcccHHHHHHHhcc-------Cch---HHHHHHHHHHHHcCccccccc
Q 040580          356 PVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR-------QRK---WTYRKLIAVYLKKQLRRNQIF  409 (412)
Q Consensus       356 p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~-------~~~---~~~~~l~~~~~~~g~~~~a~~  409 (412)
                      .+...+..|-+.|.+ ++..+|...+.+...       .+.   ....-|..-+.+.+++++|.+
T Consensus       464 te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~  528 (559)
T KOG1155|consen  464 TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASY  528 (559)
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHH
Confidence            344556677777877 888888777765322       222   222335666777888888854

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

Probab=99.43  E-value=1.4e-09  Score=95.08  Aligned_cols=288  Identities=14%  Similarity=0.033  Sum_probs=188.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC---CHHhHHHHHHHHHhc
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADL---LPEVYSRAISCFGKQ  162 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~  162 (412)
                      ..++-.....+++.+=.+.....|++-+...-+-...+.-...|+|+|+.+|+++.+.+ +-   +.++|+.++-  +++
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knD-PYRl~dmdlySN~LY--v~~  310 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKND-PYRLDDMDLYSNVLY--VKN  310 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcchhHHHHhHHHH--HHh
Confidence            34455556777777777778888876666655555666667788899999999887654 22   2347776653  332


Q ss_pred             CChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHH
Q 040580          163 GQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFL  242 (412)
Q Consensus       163 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  242 (412)
                      .+-.  +..+.+-...--+--..|+.++.+-|+-.++.++|...|+...+.+ +.....|+.+-+-|...++...|.+-+
T Consensus       311 ~~sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sY  387 (559)
T KOG1155|consen  311 DKSK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESY  387 (559)
T ss_pred             hhHH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHH
Confidence            2221  2222222111112234567777788888888888888888887765 234567777888888888888888888


Q ss_pred             HHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCC
Q 040580          243 RDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP-DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVG  321 (412)
Q Consensus       243 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~  321 (412)
                      +....-.+. |-.+|-.|.++|.-.+.+.-|+-.|++..+.  +| |...|..|-..|.+.++.++|++.|......|-.
T Consensus       388 RrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt  464 (559)
T KOG1155|consen  388 RRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT  464 (559)
T ss_pred             HHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc
Confidence            764333222 4478888888888888888888888887765  45 4778888888888888888888888887765543


Q ss_pred             CCHhhHHHHHHHHHhccccchHHHHHHhc-cC----CCCCCcccHHHHH--HHHhc-CCcccHHHHHHHh
Q 040580          322 PDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NL----DDSPVVSTDPYVF--EAFGK-GDFHSSSEAFLEF  383 (412)
Q Consensus       322 p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~----~~~p~~~~~~~li--~~~~~-~~~~~a~~~~~~~  383 (412)
                       +...+..|.+.|-+.++..+|...+++. ..    +..-+......++  ..+.+ +++++|.......
T Consensus       465 -e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  465 -EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             -chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence             5567778888888888888888777665 21    2211111122222  22344 7777776655443

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

Probab=99.42  E-value=1.2e-10  Score=106.10  Aligned_cols=283  Identities=11%  Similarity=0.032  Sum_probs=176.6

Q ss_pred             ChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHccCCHHHHHHH
Q 040580           59 KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS--FVLSVQVLSDLMDAYGRIGCFNEIISI  136 (412)
Q Consensus        59 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~  136 (412)
                      +.++|+.+|....++ +.-+......+.++|-..+++++|+++|+.+.+..  ..-+.++|.+.+-.+-+.    -++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            357777788775554 23334555667778888888888888888887643  122566777776554322    12222


Q ss_pred             H-HHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          137 I-DQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       137 ~-~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      + +++.+.+ +-.|.+|-++-++|.-+++.+.|++.|++..+.  .| ...+|+.+-.-+.....+|.|...|+....  
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--  483 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--  483 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--
Confidence            2 2232222 556778888888888888888888888887773  45 567777777777777888888888877653  


Q ss_pred             CCCCHHHHHH---HHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhH
Q 040580          215 HLIDKEGIRA---VSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTT  291 (412)
Q Consensus       215 ~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  291 (412)
                        .|+..|++   +.-.|.|.++++.|+-.|++...-.+. +.+....+...+-+.|+.++|++++++..... +-|+..
T Consensus       484 --~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~  559 (638)
T KOG1126|consen  484 --VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLC  559 (638)
T ss_pred             --CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchh
Confidence              44444444   445566777777777777665444333 34566666666677777777777777766442 223333


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCC
Q 040580          292 FNIRAVAFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPV  357 (412)
Q Consensus       292 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~  357 (412)
                      --.....+...++.++|+..++++++  +.| +...+..+.+.|-+.|+.+.|..-|--+ ..++++.
T Consensus       560 ~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  560 KYHRASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            33444555556667777777777665  344 3445555666666677776666666555 4444433

>PF13041 PPR_2: PPR repeat family

Probab=99.42  E-value=6.5e-13  Score=82.39  Aligned_cols=49  Identities=20%  Similarity=0.241  Sum_probs=22.8

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      ||..+||++|++|++.|++++|.++|++|.+.|++||..||+++|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            3444444444444444444444444444444444444444444444443

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

Probab=99.42  E-value=1.8e-10  Score=105.05  Aligned_cols=281  Identities=10%  Similarity=-0.023  Sum_probs=212.7

Q ss_pred             ChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCC--CCCHHhHHHHHHHHHhcCChHHHHHHH
Q 040580           28 NGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGL--LPDNSTLCALMLCYANNGFVLEAQVVW  102 (412)
Q Consensus        28 ~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~~  102 (412)
                      +..+|...|+.++..   .......+.++|-..+++++|..+|+...+...  .-+.+.|.+.+--+-+  .++. --+-
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~--~v~L-s~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD--EVAL-SYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh--hHHH-HHHH
Confidence            466788888886653   335566788899999999999999999987521  1267788887754322  1111 1223


Q ss_pred             HHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 040580          103 EELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV  182 (412)
Q Consensus       103 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  182 (412)
                      +.+.+.. +-...+|-++.++|+-.++.+.|++.|++..+.+ +-...+|+.+-.-+....++|.|...|+....    .
T Consensus       411 q~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~  484 (638)
T KOG1126|consen  411 QDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALG----V  484 (638)
T ss_pred             HHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhc----C
Confidence            3344433 5567899999999999999999999999996543 22445888888888889999999999988765    3


Q ss_pred             ChHHHHH---HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH-hcCCCCcchHHHH
Q 040580          183 DSATGNA---FIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV-GLGRKDLGNLLWN  258 (412)
Q Consensus       183 ~~~~~~~---li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~  258 (412)
                      |...|++   +...|.+.++++.|+-.|+...+.+ +.+.+....+...+-+.|+.|+|.+++++. ...+.+|  ..--
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~--l~~~  561 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNP--LCKY  561 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCc--hhHH
Confidence            5555554   5667889999999999999998766 335667777788889999999999999985 4444444  5555


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC
Q 040580          259 LLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP  322 (412)
Q Consensus       259 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p  322 (412)
                      .....+...++.++|++.++++++.  .|+ ...|..+...|-+.|+.+.|..-|.-+.+...++
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            5667778889999999999999975  666 5667788889999999999998888877644443

>PRK12370 invasion protein regulator; Provisional

Probab=99.41  E-value=3.7e-10  Score=108.15  Aligned_cols=214  Identities=7%  Similarity=-0.082  Sum_probs=103.2

Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH---------ccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG---------RIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ  164 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~---------~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  164 (412)
                      +.++|...|++..+.. +-+...|..+..++.         ..+++++|...+++..+.+ +-++..+..+...+...|+
T Consensus       276 ~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        276 SLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccC
Confidence            3555555555555543 223334444433332         1223555666666555443 3344455555555555566


Q ss_pred             hHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHH
Q 040580          165 LELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLR  243 (412)
Q Consensus       165 ~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  243 (412)
                      +++|...|++..+.+  | +...+..+...+...|++++|...++...+.... +...+..+...+...|++++|.+.++
T Consensus       354 ~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        354 YIVGSLLFKQANLLS--PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            666666666555542  3 2334444555555566666666666665554322 11222223333444555666666555


Q ss_pred             HHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh-HHHHHHHHHHccCChhHHHHHHHHHH
Q 040580          244 DVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLT-TFNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       244 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                      +.....++-+...+..+..++...|+.++|...+.++...  .|+.. ..+.+...++..|  +++...++.+.
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll  500 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFL  500 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHH
Confidence            5432211111244555556666666666666666665433  33322 2233333445554  35555555544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.41  E-value=4.8e-10  Score=95.22  Aligned_cols=131  Identities=13%  Similarity=0.077  Sum_probs=61.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.++..+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            344444455555555555555555554432 2334445555555555555555555555554432 22333444445555


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          160 GKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      ...|++++|...+++.......| ....+..+...+...|++++|...++...+
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  163 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQ  163 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555554421111 122333344444444555555555544443

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.41  E-value=4.3e-10  Score=95.54  Aligned_cols=199  Identities=12%  Similarity=0.037  Sum_probs=157.6

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...++...+.+ +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            34567788889999999999999999998763 3457788889999999999999999999998875 556778888999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCC-CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNA-DLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLT  201 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  201 (412)
                      .+...|++++|.+.+++...... +..+..+..+...+...|++++|...+.+..+.... +...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHH
Confidence            99999999999999999876432 223457777888899999999999999998876322 4567778888899999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          202 EMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       202 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      +|...+++..+. .+.+...+..+...+...|+.++|..+.+.+
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  229 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQL  229 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999999988776 2344555555566666666666666655543

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.

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

Probab=99.39  E-value=3.5e-11  Score=112.59  Aligned_cols=248  Identities=12%  Similarity=0.025  Sum_probs=180.2

Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 040580          100 VVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG  179 (412)
Q Consensus       100 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  179 (412)
                      .++..+...|+.|+.+||..+|.-||..|+.+.|- +|.-|+.++.+.+...++.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45677888999999999999999999999999998 9999998988888889999999999999888776          


Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh-------CCCCCCH--------------HHHHHHHHHHHhcccHHHH
Q 040580          180 FSVDSATGNAFIIYYSRFGSLTEMETAYGRLKR-------SRHLIDK--------------EGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       180 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~--------------~~~~~li~~~~~~~~~~~a  238 (412)
                       .|...||..|..+|...||+..-..+-+.|..       .|+....              .--...+.-....|.++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             68889999999999999987653333222321       2221100              1112233334445667777


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCC-ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNF-KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      .+++..+.....+.....   ++.-+.... .+++.....+...+   .|+..+|.+++.+-.-.|+.+.|..++.+|++
T Consensus       159 lkll~~~Pvsa~~~p~~v---fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQV---FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCcccccchHHH---HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            777766544433321111   244444333 33333333333332   59999999999999999999999999999999


Q ss_pred             CCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHH
Q 040580          318 ESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAF  368 (412)
Q Consensus       318 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~  368 (412)
                      .|+..+..-|-.|+-+   .++..-+..+++.| ..|+.|+..|+..-+-.+
T Consensus       233 ~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~  281 (1088)
T KOG4318|consen  233 KGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQ  281 (1088)
T ss_pred             cCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhh
Confidence            9999888777777655   67777788888888 889999999986544433

>PRK12370 invasion protein regulator; Provisional

Probab=99.37  E-value=7.2e-10  Score=106.14  Aligned_cols=247  Identities=13%  Similarity=0.034  Sum_probs=176.7

Q ss_pred             hHHHHHHHHHHhcCCCCC-HHhHHHHHHHHH---------hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           61 HLAHQLVNTVKSEGLLPD-NSTLCALMLCYA---------NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        61 ~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~---------~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ++|.++|++..+.  .|+ ...|..+..++.         ..+++++|...+++..+.+ +-+...+..+...+...|++
T Consensus       278 ~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        278 QQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCH
Confidence            7899999988875  454 445555554433         2345889999999999876 56788888888899999999


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCCHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS-ATGNAFIIYYSRFGSLTEMETAYGR  209 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~  209 (412)
                      ++|...|++..+.+ +.++..+..+...+...|++++|+..+++..+..  |+. ..+..++..+...|++++|...+++
T Consensus       355 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        355 IVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            99999999998765 5567788888899999999999999999998864  432 2233344456678999999999998


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHc-CCCCc
Q 040580          210 LKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA-GFHPD  288 (412)
Q Consensus       210 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~  288 (412)
                      ..+...+-++..+..+..++...|++++|...+.++....+. +....+.+...|+..|  ++|...++.+.+. .-.|.
T Consensus       432 ~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~  508 (553)
T PRK12370        432 LRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEIT-GLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDN  508 (553)
T ss_pred             HHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccch-hHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhc
Confidence            876543335566777888888999999999999886554443 3456677777778877  4777777776632 22343


Q ss_pred             HhHHHHHHHHHHccCChhHHHHHHHHHHhCC
Q 040580          289 LTTFNIRAVAFSRMSMFWDLHLSLEHMKHES  319 (412)
Q Consensus       289 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g  319 (412)
                      ...+..++  +.-.|+-+.+..+ +++.+.|
T Consensus       509 ~~~~~~~~--~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        509 NPGLLPLV--LVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             CchHHHHH--HHHHhhhHHHHHH-HHhhccc
Confidence            33333333  4445555555544 7776643

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

Probab=99.32  E-value=1e-07  Score=87.21  Aligned_cols=354  Identities=8%  Similarity=-0.070  Sum_probs=197.5

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYA   90 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~   90 (412)
                      ..++.-...|.+.+.++-|+.+|....+   .+...|......=-..|..+.-..+|++.... ++-....|-.....+-
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w  595 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKW  595 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHH
Confidence            3444445556666666666666665543   24445555555555566666666666666654 2223333433444455


Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      ..|++..|..++....+.. +-+...|-+-+..-....+++.|..+|.+...  ..+++.+|..-+..---.++.++|++
T Consensus       596 ~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHH
Confidence            5677777777776666654 33556666666666777777777777766643  34555566665555556666777777


Q ss_pred             HHHHHHHCCCCCCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC
Q 040580          171 TLKEMVSRGFSVDS-ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR  249 (412)
Q Consensus       171 ~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  249 (412)
                      ++++..+.  -|+- ..|-.+-..+-+.++.+.|...|..=.+ .++..+..|-.|...=-+.|.+-+|..++++.....
T Consensus       673 llEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k-~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN  749 (913)
T KOG0495|consen  673 LLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK-KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc-cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            77666653  3433 3444555566666666666666644222 123344556666665566666667777777665555


Q ss_pred             CCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHH
Q 040580          250 KDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGC  329 (412)
Q Consensus       250 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  329 (412)
                      ++ |...|-..|..=.+.|+.+.|..+..+..+. ++.+...|..-|....+.++-.+....++   +  ..-|+...-+
T Consensus       750 Pk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALk---k--ce~dphVlla  822 (913)
T KOG0495|consen  750 PK-NALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALK---K--CEHDPHVLLA  822 (913)
T ss_pred             CC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHH---h--ccCCchhHHH
Confidence            54 3466667777777777777776666665543 23334455555555444444322222222   2  3335555555


Q ss_pred             HHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHH
Q 040580          330 VVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLE  382 (412)
Q Consensus       330 li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~  382 (412)
                      +...+.....++.+.+.|... +.++ -+--+|.-++..+.. |.-++-.+++..
T Consensus       823 ia~lfw~e~k~~kar~Wf~Ravk~d~-d~GD~wa~fykfel~hG~eed~kev~~~  876 (913)
T KOG0495|consen  823 IAKLFWSEKKIEKAREWFERAVKKDP-DNGDAWAWFYKFELRHGTEEDQKEVLKK  876 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccCC-ccchHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            666666666667777777666 3322 122234444444444 544444444443

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

Probab=99.31  E-value=1.1e-07  Score=83.74  Aligned_cols=125  Identities=9%  Similarity=0.039  Sum_probs=72.6

Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHH
Q 040580          267 NFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFG  346 (412)
Q Consensus       267 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~  346 (412)
                      +.++..|.+++....  |.-|-..+|-..|..-.+.++++.+..+++..+..+.. +..+|......-...|+.+++..+
T Consensus       417 q~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~~W~kyaElE~~LgdtdRaRai  493 (677)
T KOG1915|consen  417 QLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCYAWSKYAELETSLGDTDRARAI  493 (677)
T ss_pred             HcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhHHHHHHHHHHHHhhhHHHHHHH
Confidence            344444444444433  44566666666666666667777777777777664422 556666655555567777777777


Q ss_pred             HHhccCCCCCCcccHHHHHHHHhc-----CCcccHHHHHHHhcc--CchHHHHHHHH
Q 040580          347 LSKMNLDDSPVVSTDPYVFEAFGK-----GDFHSSSEAFLEFKR--QRKWTYRKLIA  396 (412)
Q Consensus       347 ~~~m~~~~~p~~~~~~~li~~~~~-----~~~~~a~~~~~~~~~--~~~~~~~~l~~  396 (412)
                      |+..-..  |...+=..|+.+|..     |.+..|..++.++..  +...+|.+...
T Consensus       494 felAi~q--p~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~  548 (677)
T KOG1915|consen  494 FELAISQ--PALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAK  548 (677)
T ss_pred             HHHHhcC--cccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHH
Confidence            7766221  333333455666532     667777777776554  44455655544

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

Probab=99.30  E-value=7.6e-09  Score=90.45  Aligned_cols=378  Identities=11%  Similarity=0.022  Sum_probs=232.1

Q ss_pred             cccccccCCCChHHHHHHHHHhhc--c------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHH
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQ--E------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCY   89 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~--~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~   89 (412)
                      .+...+.+...+.+|++.++....  |      -....+.+--.+.+.|.+++|+..|+...+.  .|+..+--.|+-++
T Consensus       242 nigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~  319 (840)
T KOG2003|consen  242 NIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICA  319 (840)
T ss_pred             eecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhh
Confidence            455678888899999998876432  2      2233555556778999999999999998875  68876644455555


Q ss_pred             HhcCChHHHHHHHHHHHhCCC------------CcCHHHHHHHHH-----HHHccCC--HHHHHHHHHHHhhcCCCCCHH
Q 040580           90 ANNGFVLEAQVVWEELLSSSF------------VLSVQVLSDLMD-----AYGRIGC--FNEIISIIDQVSCRNADLLPE  150 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~------------~~~~~~~~~li~-----~~~~~~~--~~~a~~~~~~m~~~~~~~~~~  150 (412)
                      -.-|+.++..+.|..|+....            .|+....|.-|.     -.-+.+.  .+++.-.-.++...-+.|+-.
T Consensus       320 f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa  399 (840)
T KOG2003|consen  320 FAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFA  399 (840)
T ss_pred             eecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchh
Confidence            667899999999999986322            233333332222     1212111  111111111111111111110


Q ss_pred             -------------hHH--------HHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHH--HHH--------------
Q 040580          151 -------------VYS--------RAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAF--IIY--------------  193 (412)
Q Consensus       151 -------------~~~--------~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l--i~~--------------  193 (412)
                                   .+.        .-...+.++|+++.|+++++-+.+..-+.-...-+.|  +.-              
T Consensus       400 ~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqya  479 (840)
T KOG2003|consen  400 AGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYA  479 (840)
T ss_pred             cccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHH
Confidence                         000        1123467899999999999887654322111111111  100              


Q ss_pred             --------------------HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcc
Q 040580          194 --------------------YSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLG  253 (412)
Q Consensus       194 --------------------~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  253 (412)
                                          ....|++++|...+++.......-....||. --.+-+.|++++|.+.|-++..--.+ +
T Consensus       480 d~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~il~n-n  557 (840)
T KOG2003|consen  480 DIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAILLN-N  557 (840)
T ss_pred             HHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHHHHh-h
Confidence                                0124778888888887775432222222222 22345678888888887765322221 2


Q ss_pred             hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 040580          254 NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP-DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVD  332 (412)
Q Consensus       254 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  332 (412)
                      ......+...|-...++..|++++-+..  .+.| |....+-|...|-+.|+-..|+..+-+-- +-++.+..|...|..
T Consensus       558 ~evl~qianiye~led~aqaie~~~q~~--slip~dp~ilskl~dlydqegdksqafq~~ydsy-ryfp~nie~iewl~a  634 (840)
T KOG2003|consen  558 AEVLVQIANIYELLEDPAQAIELLMQAN--SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSY-RYFPCNIETIEWLAA  634 (840)
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHhc--ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcc-cccCcchHHHHHHHH
Confidence            3455566677777778888888776554  3345 46777888888999998888887654422 234557888888888


Q ss_pred             HHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc--CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCc
Q 040580          333 AYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK--GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQL  403 (412)
Q Consensus       333 ~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~--~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~  403 (412)
                      .|...+-++++..+|++... ..|+..-|..+|..|-+  |++++|.+.+.+...   .|......|...+...|.
T Consensus       635 yyidtqf~ekai~y~ekaal-iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  635 YYIDTQFSEKAINYFEKAAL-IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHhhHHHHHHHHHHHHHHh-cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            88888888889888888732 45888899999987744  999999999987655   456666666665554443

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

Probab=99.29  E-value=7.4e-10  Score=92.70  Aligned_cols=228  Identities=13%  Similarity=0.013  Sum_probs=144.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHH-HHHHHHHh
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYS-RAISCFGK  161 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~li~~~~~  161 (412)
                      +.+.++|.+.|.+.+|...++.-++.  .|-+.||-.|-++|.+..++..|+.+|.+-.+.  .|...||- -+...+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            34566666777777777766666654  455566666667777777777777777666543  23333333 34555666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHH
Q 040580          162 QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEF  241 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  241 (412)
                      .++.++|.++++...+... .++....++...|.-.++++.|.+.++.+.+-|+. ++..|+.+.-.|.-.+++|-+.-.
T Consensus       303 m~~~~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            6677777777776665421 14445555556666667777777777777776643 566666666666666666666665


Q ss_pred             HHHHhcCC--CCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          242 LRDVGLGR--KDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       242 ~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      |.+....-  +..-...|-.+-...+..|++..|.+.|+-..... .-+...++.|.-.-.+.|++++|..++....+
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            55532221  22223667777777777888888888888776542 22356777777777788888888888877654

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

Probab=99.27  E-value=3.4e-07  Score=83.93  Aligned_cols=380  Identities=7%  Similarity=-0.011  Sum_probs=205.2

Q ss_pred             ccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHH----HhcCCCCCHHhHHHHHHHH
Q 040580           17 FNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTV----KSEGLLPDNSTLCALMLCY   89 (412)
Q Consensus        17 ~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~g~~p~~~~~~~ll~~~   89 (412)
                      ..|.-+|++..-++.|.+++...++   .+...|-+....=-.+|+.+...+++++-    ...|+..+...|-.=...|
T Consensus       410 ~dLwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~  489 (913)
T KOG0495|consen  410 MDLWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEAC  489 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHH
Confidence            3445567777778888888877665   36666766666666677777776666553    3345555554444444444


Q ss_pred             HhcCChHHHHHHHHHHHhCCC------------------------------------CcCHHHHHHHHHHHHccCCHHHH
Q 040580           90 ANNGFVLEAQVVWEELLSSSF------------------------------------VLSVQVLSDLMDAYGRIGCFNEI  133 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~------------------------------------~~~~~~~~~li~~~~~~~~~~~a  133 (412)
                      -..|.+-.+..+....+..|+                                    +.+...|......=-..|..+..
T Consensus       490 e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl  569 (913)
T KOG0495|consen  490 EDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESL  569 (913)
T ss_pred             hhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHH
Confidence            444444444444444333332                                    23334444444333344445555


Q ss_pred             HHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          134 ISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       134 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      ..+|++.... .+-.+..|-.....+-..|++..|..++.+..+.... +...|-.-+..-.....++.|+.+|.+....
T Consensus       570 ~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~  647 (913)
T KOG0495|consen  570 EALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI  647 (913)
T ss_pred             HHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc
Confidence            5555555433 2333335555555555666666666666666554322 4455555566666666666666666665543


Q ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHH
Q 040580          214 RHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTF  292 (412)
Q Consensus       214 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~  292 (412)
                        .|+..+|.--+...--.+..++|.+++++.-...+.. ...|-.+.+.+-+.++.+.|...|..-.+.  -|+ .-.|
T Consensus       648 --sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f-~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~--cP~~ipLW  722 (913)
T KOG0495|consen  648 --SGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDF-HKLWLMLGQIEEQMENIEMAREAYLQGTKK--CPNSIPLW  722 (913)
T ss_pred             --CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCch-HHHHHHHhHHHHHHHHHHHHHHHHHhcccc--CCCCchHH
Confidence              3555555555555555566666666665543333321 134444555555555555555555443322  344 3344


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHH--------
Q 040580          293 NIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYV--------  364 (412)
Q Consensus       293 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~l--------  364 (412)
                      -.|...--+.|++-+|..++++..-.+. -+...|-..|+.-.+.|..+.|..++.+.-+.+.-+...|.--        
T Consensus       723 llLakleEk~~~~~rAR~ildrarlkNP-k~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~  801 (913)
T KOG0495|consen  723 LLLAKLEEKDGQLVRARSILDRARLKNP-KNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQ  801 (913)
T ss_pred             HHHHHHHHHhcchhhHHHHHHHHHhcCC-CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcc
Confidence            4444455566677777777777654433 2666777777777777777777666544422221122222111        


Q ss_pred             -----HHHH------------------hcCCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCcc
Q 040580          365 -----FEAF------------------GKGDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLR  404 (412)
Q Consensus       365 -----i~~~------------------~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~  404 (412)
                           ++++                  ....+++|.+.|.+-..   .+..+|.-+..-+.+.|.-
T Consensus       802 rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~e  867 (913)
T KOG0495|consen  802 RKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTE  867 (913)
T ss_pred             cchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCH
Confidence                 2222                  22444455555555333   4567777777777777743

>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=99.25  E-value=3.2e-08  Score=92.07  Aligned_cols=290  Identities=12%  Similarity=0.024  Sum_probs=174.2

Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc----
Q 040580           52 EDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI----  127 (412)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----  127 (412)
                      ..+...|++++|++.++.-... +.............+.+.|+.++|..+|..+++.+ |.|..-|..+..+..-.    
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccc
Confidence            3446778888888888664433 33334445667777788888888888888888875 34444445555544222    


Q ss_pred             -CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 040580          128 -GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQL-ELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMET  205 (412)
Q Consensus       128 -~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  205 (412)
                       .+.+...++++++...-  |.....-.+.-.+.....+ ..+...+..+..+|+++   +|+.|-..|......+-...
T Consensus        90 ~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHH
Confidence             24666777777775543  2222222222222221122 24445556666777643   45556555665555555555


Q ss_pred             HHHHHHhC----C----------CCCCHH--HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCC
Q 040580          206 AYGRLKRS----R----------HLIDKE--GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFK  269 (412)
Q Consensus       206 ~~~~~~~~----~----------~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  269 (412)
                      ++......    +          -.|+..  ++.-+.+.|-..|++++|.+.+++.-...|.. +..|..-...|-..|+
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~-~ely~~KarilKh~G~  243 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTL-VELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCc-HHHHHHHHHHHHHCCC
Confidence            55554322    1          123332  34555666777888888888888654444332 4677777788888888


Q ss_pred             hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhH--------HHHHHHHHhccccc
Q 040580          270 MKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTY--------GCVVDAYLDKRLGR  341 (412)
Q Consensus       270 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~--------~~li~~~~~~~~~~  341 (412)
                      +.+|....+..++.. .-|...-+-....+.+.|++++|.+++....+.+..|.....        .....+|.+.|++.
T Consensus       244 ~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  244 LKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            888888888877654 335556666777778888888888888877666654432221        23355777788887


Q ss_pred             hHHHHHHhc
Q 040580          342 NLDFGLSKM  350 (412)
Q Consensus       342 ~a~~~~~~m  350 (412)
                      .|.+-|..+
T Consensus       323 ~ALk~~~~v  331 (517)
T PF12569_consen  323 LALKRFHAV  331 (517)
T ss_pred             HHHHHHHHH
Confidence            777666554

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 [], [].

>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=99.21  E-value=3.8e-08  Score=91.60  Aligned_cols=287  Identities=9%  Similarity=-0.015  Sum_probs=202.6

Q ss_pred             ccccCCCChHHHHHHHHHhhcc--Chh-hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH-h-----
Q 040580           21 SHQTHPKNGDLARKIIRYRKQE--GFV-DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYA-N-----   91 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~--~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~-~-----   91 (412)
                      ..+...|++++|+..++.....  |.. ........+.+.|+.++|..+|..+...+  |+...|...+..+. -     
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccc
Confidence            4567889999999999876553  444 45566778899999999999999999974  66666555444443 2     


Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH-HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN-EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~-~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      ..+.+...++|+++...-  |.......+.-.+..-..+. .+...+..+..+|++   .+|+.|-..|.......-..+
T Consensus        90 ~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence            235788889999887653  44333333322232222332 355666777778873   688888888887766666677


Q ss_pred             HHHHHHHC----C----------CCCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc
Q 040580          171 TLKEMVSR----G----------FSVDS--ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK  234 (412)
Q Consensus       171 ~~~~m~~~----g----------~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  234 (412)
                      ++..+...    |          -.|+.  .++..+...|...|++++|...++..+++. +..+..|..-...|-..|+
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCC
Confidence            77766532    1          12333  244556677889999999999999998874 2247788888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHH--------HHHHHHHHccCChh
Q 040580          235 FFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTF--------NIRAVAFSRMSMFW  306 (412)
Q Consensus       235 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~--------~~ll~~~~~~g~~~  306 (412)
                      +.+|.+.++..+.-... |...-+-....+.++|+.++|..++......+..|-...+        .....+|.+.|++.
T Consensus       244 ~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  244 LKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            99999999987554443 4566677788889999999999999988876654433222        34556788999988


Q ss_pred             HHHHHHHHHH
Q 040580          307 DLHLSLEHMK  316 (412)
Q Consensus       307 ~a~~~~~~m~  316 (412)
                      .|++.|....
T Consensus       323 ~ALk~~~~v~  332 (517)
T PF12569_consen  323 LALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHH
Confidence            8877665543

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 [], [].

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

Probab=99.20  E-value=1.2e-07  Score=83.94  Aligned_cols=355  Identities=10%  Similarity=0.007  Sum_probs=222.2

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC-HHHHHHHHHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD-NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS-VQVLSDLMDAY  124 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~  124 (412)
                      +.....-|-++|++++|++.|.+.++.  .|| +..|...--+|...|+|+++.+--...++.  .|+ +..+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            344455667788888888888888874  677 667777777888888888877766666554  333 33444444444


Q ss_pred             HccCCHHHH----------------------HHHHHH---------Hhhc--CCCCCHHhHHHHHHHHHhc--------C
Q 040580          125 GRIGCFNEI----------------------ISIIDQ---------VSCR--NADLLPEVYSRAISCFGKQ--------G  163 (412)
Q Consensus       125 ~~~~~~~~a----------------------~~~~~~---------m~~~--~~~~~~~~~~~li~~~~~~--------g  163 (412)
                      -..|++++|                      .+++++         +.+.  .+.|++...++....|...        +
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~  273 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKS  273 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCC
Confidence            444544443                      222221         1111  1234444434433333210        0


Q ss_pred             --------------------ChHHHHHHHHHHHH-CCCCCChH---------HHHHHHHH--HHhcCCHHHHHHHHHHHH
Q 040580          164 --------------------QLELMENTLKEMVS-RGFSVDSA---------TGNAFIIY--YSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       164 --------------------~~~~a~~~~~~m~~-~g~~p~~~---------~~~~li~~--~~~~g~~~~a~~~~~~~~  211 (412)
                                          .+..|.+.+.+-.. .-..++.-         .-..++.+  +.-.|+.-.+..-|+..+
T Consensus       274 ~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I  353 (606)
T KOG0547|consen  274 DKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAI  353 (606)
T ss_pred             ccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHH
Confidence                                12222222221110 00111111         11111111  223577788888888888


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-Hh
Q 040580          212 RSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LT  290 (412)
Q Consensus       212 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~  290 (412)
                      +....+ ...|.-+..+|....+.++....|.+...-.+. |+.+|..=...+.-.+++++|..=|++....  .|+ ..
T Consensus       354 ~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~  429 (606)
T KOG0547|consen  354 KLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAY  429 (606)
T ss_pred             hcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhH
Confidence            765333 233777888899999999999988876443333 3477887778888888999999999988754  454 56


Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCC-----Cccc--HH
Q 040580          291 TFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSP-----VVST--DP  362 (412)
Q Consensus       291 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p-----~~~~--~~  362 (412)
                      .|-.+-.+.-+.++++++...|++.+++ ++-.+..|+.....+...++++.|.+.|+.. .....-     +..+  ..
T Consensus       430 ~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~K  508 (606)
T KOG0547|consen  430 AYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHK  508 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhh
Confidence            6777777777889999999999997653 5556788999999999999999999999886 433221     1111  11


Q ss_pred             HHHHHHhcCCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc-ccc
Q 040580          363 YVFEAFGKGDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ-IFW  410 (412)
Q Consensus       363 ~li~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a-~~w  410 (412)
                      .++..=-++++..|.+++.+-.+   +....|.+|...-.++|+.++| +++
T Consensus       509 a~l~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielF  560 (606)
T KOG0547|consen  509 ALLVLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELF  560 (606)
T ss_pred             hHhhhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            11111133888999999987655   4566799999999999999998 444

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.20  E-value=1.4e-08  Score=93.31  Aligned_cols=242  Identities=18%  Similarity=0.125  Sum_probs=139.3

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhc-----C-CCCCHHh-HHHHHHHHHhcCChHHHHHHHHHHHh-----CC--CC
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSE-----G-LLPDNST-LCALMLCYANNGFVLEAQVVWEELLS-----SS--FV  111 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~-----~~--~~  111 (412)
                      +...+...|...|+++.|+.+++...+.     | ..|...+ .+.+...|...+++++|..+|+.+..     .|  .+
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            4555888888999999999998887654     2 1233333 33466677788888888888888764     12  12


Q ss_pred             cCHHHHHHHHHHHHccCCHHHHHHHHHHHhh---cCC-CCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHHC---CCC
Q 040580          112 LSVQVLSDLMDAYGRIGCFNEIISIIDQVSC---RNA-DLLPE---VYSRAISCFGKQGQLELMENTLKEMVSR---GFS  181 (412)
Q Consensus       112 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~-~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~  181 (412)
                      --..+++.|..+|.+.|++++|...+++..+   .-. ...+.   .++.+...++..+++++|..++....+.   -+.
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            2346677777888888888877777665432   100 11111   5566677777777888877777755331   122


Q ss_pred             CC----hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHH
Q 040580          182 VD----SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLW  257 (412)
Q Consensus       182 p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  257 (412)
                      ++    ..+++.|-..|-..|++++|+++++...+..-                            +............+
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~----------------------------~~~~~~~~~~~~~l  412 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILR----------------------------ELLGKKDYGVGKPL  412 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHH----------------------------hcccCcChhhhHHH
Confidence            22    24566777777777777777777766654210                            00000000012344


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHH----HcCC-CCc-HhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          258 NLLLLSYAGNFKMKSLQREFMRMS----EAGF-HPD-LTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       258 ~~li~~~~~~g~~~~a~~~~~~m~----~~~~-~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      +.|..+|.+.++.++|.++|.+-.    ..|. .|+ ..+|..|...|...|+++.|.++.+..
T Consensus       413 ~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  413 NQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            455555555555555555554422    1221 122 345556666666666666666665544

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

Probab=99.19  E-value=9.8e-10  Score=91.98  Aligned_cols=233  Identities=12%  Similarity=0.037  Sum_probs=181.5

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc
Q 040580           48 ASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI  127 (412)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  127 (412)
                      +.+.++|.+.|-+.+|.+-|+.-.+.  .|-+.||-.|-++|.+..+++.|+.++.+-++. ++-|+.....+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            46778888888888888888887765  677788888888888888888888888888765 355555566677788888


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Q 040580          128 GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAY  207 (412)
Q Consensus       128 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  207 (412)
                      ++.++|.++++...+.. +.+.+....+..+|.-.++++.|+..++++.+.|+. +...|+.+--+|.-.+++|.+..-|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            88888888888887654 455567777777888888889999999888888876 6777888877888888888888888


Q ss_pred             HHHHhCCCCCC--HHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCC
Q 040580          208 GRLKRSRHLID--KEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGF  285 (412)
Q Consensus       208 ~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  285 (412)
                      ......--.|+  ..+|-.+-......|++.-|.+.|+-.-....+ ...++|.|...-.+.|+++.|..++......  
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~--  458 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV--  458 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh--
Confidence            88776554444  346777777777888888888888865444443 4588888888888999999999998887754  


Q ss_pred             CCc
Q 040580          286 HPD  288 (412)
Q Consensus       286 ~p~  288 (412)
                      .|+
T Consensus       459 ~P~  461 (478)
T KOG1129|consen  459 MPD  461 (478)
T ss_pred             Ccc
Confidence            555

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.14  E-value=6.6e-08  Score=89.03  Aligned_cols=236  Identities=14%  Similarity=0.090  Sum_probs=159.5

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHhhc-----CCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHHC-----C
Q 040580          113 SVQVLSDLMDAYGRIGCFNEIISIIDQVSCR-----NADLLPE---VYSRAISCFGKQGQLELMENTLKEMVSR-----G  179 (412)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g  179 (412)
                      -..+...|...|...|+++.|+.+++...+.     | .-.+.   ..+.+...|...+++++|..+|+++..-     |
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G-~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G  276 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSG-LKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFG  276 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccC-ccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcC
Confidence            3456666777888888888888877765443     1 11122   3444666777788888888888877542     1


Q ss_pred             -CCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCCH-HHHHHHHHHHHhcccHHHHHHHHHHH-----
Q 040580          180 -FSVD-SATGNAFIIYYSRFGSLTEMETAYGRLKRS-----RH-LIDK-EGIRAVSFTYLKERKFFMLGEFLRDV-----  245 (412)
Q Consensus       180 -~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~-----  245 (412)
                       ..|. ..+++.|-.+|.+.|++++|...++...+.     |. .|.. ..++.+...++..+++++|..+++..     
T Consensus       277 ~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~  356 (508)
T KOG1840|consen  277 EDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYL  356 (508)
T ss_pred             CCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHH
Confidence             1121 245666667788888888777776665431     11 1222 23555666777778888887777652     


Q ss_pred             ---hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHc------CCCCc-HhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          246 ---GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA------GFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       246 ---~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                         +...+. -..+++.|...|-..|++++|..++++..+.      +..+. ...++.+..+|.+.++..+|..+|.+.
T Consensus       357 ~~~g~~~~~-~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~  435 (508)
T KOG1840|consen  357 DAPGEDNVN-LAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEA  435 (508)
T ss_pred             hhccccchH-HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHH
Confidence               111111 2478999999999999999999999987632      22333 456788999999999999999998775


Q ss_pred             Hh----CCCC-C-CHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          316 KH----ESVG-P-DLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       316 ~~----~g~~-p-~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      +.    .|.. | ...+|..|...|.+.|+++.|.++.+..
T Consensus       436 ~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  436 KDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            43    3332 3 3578889999999999999999987665

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.14  E-value=1.7e-07  Score=82.41  Aligned_cols=217  Identities=10%  Similarity=-0.005  Sum_probs=111.6

Q ss_pred             CChhHHHHHHHHHHhcC-CCCC--HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHH
Q 040580           58 KKPHLAHQLVNTVKSEG-LLPD--NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEII  134 (412)
Q Consensus        58 ~~~~~a~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  134 (412)
                      +..+.++.-+.++.... ..|+  ...|..+...+...|+.++|...|++..+.. +.+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34455555555555421 1121  2345555556666666666666666666654 445566666666666667777776


Q ss_pred             HHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          135 SIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       135 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      +.|++..+.+ +-++.+|..+...+...|++++|++.|+...+.  .|+..........+...++.++|...++......
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            6666665433 223445666666666666777776666666654  2332211222222334456666666665443221


Q ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhc---CCCC---cchHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          215 HLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGL---GRKD---LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       215 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                       .|+...+ .+..  ...|+..++ +.+..+..   ..+.   ....+|..+...+.+.|+.++|...|++..+.
T Consensus       196 -~~~~~~~-~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        196 -DKEQWGW-NIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             -CccccHH-HHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence             1221111 1111  122333222 12222110   0000   01246777777777777788887777777754

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

Probab=99.12  E-value=1e-06  Score=77.96  Aligned_cols=195  Identities=8%  Similarity=0.013  Sum_probs=132.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh--HHHHHHH----H-HH---HhcCCHHHHHHHHHHHHhCCCCCCH
Q 040580          150 EVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS--ATGNAFI----I-YY---SRFGSLTEMETAYGRLKRSRHLIDK  219 (412)
Q Consensus       150 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~li----~-~~---~~~g~~~~a~~~~~~~~~~~~~~~~  219 (412)
                      ++|--.+..-...|+.+...++|+....+ ++|-.  ..|.-.|    + ++   ....+.+.+.++|+...+ -++...
T Consensus       323 DsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIPHkk  400 (677)
T KOG1915|consen  323 DSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LIPHKK  400 (677)
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcCccc
Confidence            35555555556667777777777777655 33311  1122111    1 11   245677777778777776 233345


Q ss_pred             HHHHHHHHHHH----hcccHHHHHHHHHHH-hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHH
Q 040580          220 EGIRAVSFTYL----KERKFFMLGEFLRDV-GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNI  294 (412)
Q Consensus       220 ~~~~~li~~~~----~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  294 (412)
                      .|+..+--.|+    +..++..|.+++... +.++.+   .+|...|..=.+.++++.+..++++..+.+ +-|..+|.-
T Consensus       401 FtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~---KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~k  476 (677)
T KOG1915|consen  401 FTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKD---KLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSK  476 (677)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCch---hHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHH
Confidence            56555544444    567888888888753 444433   788888888888999999999999999875 446788888


Q ss_pred             HHHHHHccCChhHHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          295 RAVAFSRMSMFWDLHLSLEHMKHES-VGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       295 ll~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      ....-...|+.+.|..+|.-.++.. +......|.+.|+--...|.++.+..+++.+
T Consensus       477 yaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerl  533 (677)
T KOG1915|consen  477 YAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERL  533 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHH
Confidence            8888888999999999999988743 2223445555555555689999999999988

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

Probab=99.12  E-value=1.9e-07  Score=84.06  Aligned_cols=279  Identities=9%  Similarity=-0.022  Sum_probs=198.1

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      .-.-..-+-..+++++..++++...+.. ++....+..=|..+...|+..+-..+=..+++.- |-...+|-++...|.-
T Consensus       247 l~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~  324 (611)
T KOG1173|consen  247 LAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLM  324 (611)
T ss_pred             HHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHH
Confidence            3334445566778888888888887653 5566666666677888888877777777777763 6667888888888888


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHH
Q 040580          127 IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMET  205 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~  205 (412)
                      .|..++|.+.|.+...-+-... ..|-....+|+-.|..++|+..+...-+-  .| ..--+--+---|.+.++.+.|.+
T Consensus       325 i~k~seARry~SKat~lD~~fg-paWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~  401 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLDPTFG-PAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEK  401 (611)
T ss_pred             hcCcHHHHHHHHHHhhcCcccc-HHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHH
Confidence            8999999999987754432222 27888888888888888888888776553  11 11112234445778888999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC------cchHHHHHHHHHHhcCCChHHHHHHHHH
Q 040580          206 AYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD------LGNLLWNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                      .|.+..... +-|+.+.+-+--.....+.+.+|...|+.....-+.      .-..+++.|..+|.+.+++++|+..+++
T Consensus       402 Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  402 FFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            988876543 346777777766666778888888888764311110      1235688888888999999999999888


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 040580          280 MSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAY  334 (412)
Q Consensus       280 m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  334 (412)
                      ..... +-|..++.++.-.|...|+++.|...|.+.  ..+.|+-.+-..++..+
T Consensus       481 aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKa--L~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  481 ALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKA--LALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHH--HhcCCccHHHHHHHHHH
Confidence            77542 456788888888888899999999888875  44778876666666543

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

Probab=99.05  E-value=5.7e-06  Score=76.06  Aligned_cols=356  Identities=13%  Similarity=0.032  Sum_probs=231.1

Q ss_pred             cccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           22 HQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEA   98 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a   98 (412)
                      .+...|+-++|..........   +.+.|+.+.-.+...+++++|++.|.....-+ +-|...+.-|-..-++.++++..
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhH
Confidence            456778889998888876654   66779988888888999999999999998764 34667777777777888999998


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCCHHhHHHHH------HHHHhcCChHHHHHH
Q 040580           99 QVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-DLLPEVYSRAI------SCFGKQGQLELMENT  171 (412)
Q Consensus        99 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li------~~~~~~g~~~~a~~~  171 (412)
                      ......+.+.. +.....|..+..++.-.|+...|..++++..+... .|++..|....      ....+.|.++.|++.
T Consensus       129 ~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~  207 (700)
T KOG1156|consen  129 LETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEH  207 (700)
T ss_pred             HHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            88888888763 44567889999999999999999999999877652 56666555432      344567888888877


Q ss_pred             HHHHHHCCCCCChHHHH-HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcccHHHHH-HHHHHHhcC
Q 040580          172 LKEMVSRGFSVDSATGN-AFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAV-SFTYLKERKFFMLG-EFLRDVGLG  248 (412)
Q Consensus       172 ~~~m~~~g~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~~~~~~a~-~~~~~~~~~  248 (412)
                      +..-...  ..|...+. +-...+.+.+++++|..++..+...+  ||..-|... ..++.+-.+--++. .++......
T Consensus       208 L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~  283 (700)
T KOG1156|consen  208 LLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEK  283 (700)
T ss_pred             HHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc
Confidence            7665443  12333332 34456778899999999999998775  665554444 44443222222222 333332111


Q ss_pred             CCCc-------------------------------chHHHHHHHHHHhcCCChHHHHHHHHHHH----HcC---------
Q 040580          249 RKDL-------------------------------GNLLWNLLLLSYAGNFKMKSLQREFMRMS----EAG---------  284 (412)
Q Consensus       249 ~~~~-------------------------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~----~~~---------  284 (412)
                      .+..                               -+.++..+.+.|-.-...+-..++.-.+.    ..|         
T Consensus       284 y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~  363 (700)
T KOG1156|consen  284 YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGK  363 (700)
T ss_pred             CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccc
Confidence            1100                               01334444444433222221111111111    111         


Q ss_pred             -CCCcHh--HHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhccccchHHHHHHhccCCCCCCccc
Q 040580          285 -FHPDLT--TFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDL-VTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVST  360 (412)
Q Consensus       285 -~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~  360 (412)
                       -+|...  |+-.++..+-+.|+++.|..+++..++  -.|+. .-|..=.+.+...|+.+.|..++++...-..||...
T Consensus       364 ~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~I  441 (700)
T KOG1156|consen  364 QEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAI  441 (700)
T ss_pred             cCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHH
Confidence             145544  344677788899999999999998765  35553 445444577888999999999999884444466665


Q ss_pred             HHHHHHHHhc-CCcccHHHHHHHhcc
Q 040580          361 DPYVFEAFGK-GDFHSSSEAFLEFKR  385 (412)
Q Consensus       361 ~~~li~~~~~-~~~~~a~~~~~~~~~  385 (412)
                      -+--.....+ ...++|.+++.....
T Consensus       442 NsKcAKYmLrAn~i~eA~~~~skFTr  467 (700)
T KOG1156|consen  442 NSKCAKYMLRANEIEEAEEVLSKFTR  467 (700)
T ss_pred             HHHHHHHHHHccccHHHHHHHHHhhh
Confidence            4444444455 777788887776655

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.05  E-value=3.7e-06  Score=76.48  Aligned_cols=370  Identities=15%  Similarity=0.088  Sum_probs=184.2

Q ss_pred             ccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC
Q 040580           17 FNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG   93 (412)
Q Consensus        17 ~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~   93 (412)
                      ..=+..+.+.|++++|.+....+..   .+...+..=+-++.+.+++++|+.+.+.-...  ..+..-+---..+..+.+
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcc
Confidence            3445567788889998888887764   36666777777778888888888555432210  111111111122334566


Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC--------------------------CCC
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN--------------------------ADL  147 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------------------~~~  147 (412)
                      +.++|+..++-.-    +.+..+...-...+-+.|++++|+.+|+.+.+.+                          ++.
T Consensus        94 k~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~  169 (652)
T KOG2376|consen   94 KLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPE  169 (652)
T ss_pred             cHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccC
Confidence            6666666665111    1122344444555666677777777776664322                          111


Q ss_pred             CHH-hHHHH---HHHHHhcCChHHHHHHHHHHHHCC-------------CCCChHH-HHHHHHHHHhcCCHHHHHHHHHH
Q 040580          148 LPE-VYSRA---ISCFGKQGQLELMENTLKEMVSRG-------------FSVDSAT-GNAFIIYYSRFGSLTEMETAYGR  209 (412)
Q Consensus       148 ~~~-~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g-------------~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~  209 (412)
                      .+. +|..+   ...+...|++.+|+++++...+-+             +.-...+ -.-+..++-..|+..+|..++..
T Consensus       170 v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  170 VPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVD  249 (652)
T ss_pred             CCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            111 44433   334557788888888887762211             1101111 11234455677888888888888


Q ss_pred             HHhCCCCCCHHH----HHHHHHHHHh---------------------------------------------cccHHHHHH
Q 040580          210 LKRSRHLIDKEG----IRAVSFTYLK---------------------------------------------ERKFFMLGE  240 (412)
Q Consensus       210 ~~~~~~~~~~~~----~~~li~~~~~---------------------------------------------~~~~~~a~~  240 (412)
                      +.+... +|...    .|.|+..-..                                             .+.-+.+.+
T Consensus       250 ~i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~  328 (652)
T KOG2376|consen  250 IIKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRE  328 (652)
T ss_pred             HHHhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            776553 22211    1111111000                                             011111111


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHHhcC--CChHHHHHHHHHHHHcCCCCcH--hHHHHHHHHHHccCChhHHHHHHH---
Q 040580          241 FLRDVGLGRKDLGNLLWNLLLLSYAGN--FKMKSLQREFMRMSEAGFHPDL--TTFNIRAVAFSRMSMFWDLHLSLE---  313 (412)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~---  313 (412)
                      +-.  ..++..| ...+.+++....+.  ..+.++..++....+.  .|..  ..--.++......|+++.|.+++.   
T Consensus       329 ~~a--~lp~~~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~  403 (652)
T KOG2376|consen  329 LSA--SLPGMSP-ESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFL  403 (652)
T ss_pred             HHH--hCCccCc-hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence            111  1122222 24444444443332  2355555555555543  2332  233345555666777777777776   


Q ss_pred             -----HHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-c--CCCCCCcccHHHHHHH---H-hc-CCcccHHHHH
Q 040580          314 -----HMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-N--LDDSPVVSTDPYVFEA---F-GK-GDFHSSSEAF  380 (412)
Q Consensus       314 -----~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~--~~~~p~~~~~~~li~~---~-~~-~~~~~a~~~~  380 (412)
                           .+.+.+..|-  +..+++..+.+.++.+.+..++.+. .  ....+......+++.-   + -+ |+-.+|..++
T Consensus       404 ~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~l  481 (652)
T KOG2376|consen  404 ESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLL  481 (652)
T ss_pred             hhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHH
Confidence                 4444444444  3344555566666666555555443 1  1111222223333322   1 12 6666777666


Q ss_pred             HHhcc---CchHHHHHHHHHHHH
Q 040580          381 LEFKR---QRKWTYRKLIAVYLK  400 (412)
Q Consensus       381 ~~~~~---~~~~~~~~l~~~~~~  400 (412)
                      +++..   +|..+..-++.+|++
T Consensus       482 eel~k~n~~d~~~l~~lV~a~~~  504 (652)
T KOG2376|consen  482 EELVKFNPNDTDLLVQLVTAYAR  504 (652)
T ss_pred             HHHHHhCCchHHHHHHHHHHHHh
Confidence            66544   556666666666665

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

Probab=99.04  E-value=6.3e-07  Score=71.96  Aligned_cols=195  Identities=11%  Similarity=-0.030  Sum_probs=131.5

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      .-.+.-.|...|+...|.+-+++..+.. +-+..+|..+...|.+.|+.+.|.+-|+...+.. +-+..+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            3445556777788888888888877764 2245677777777778888888888888777764 5566777777777788


Q ss_pred             cCCHHHHHHHHHHHhhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 040580          127 IGCFNEIISIIDQVSCRNADL-LPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMET  205 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  205 (412)
                      .|++++|...|++......-+ .+.+|..+.-+..+.|+.+.|...|++-.+.... ...+.-.+.....+.|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHH
Confidence            888888888777765443222 2347777777777778888888888777764322 23455566777777778778877


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          206 AYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      .++.....+. ++..+.-..|..-...|+.+.+.+.-..+
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            7777776654 66665555555555566665555444333

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

Probab=99.03  E-value=4.2e-06  Score=76.15  Aligned_cols=197  Identities=10%  Similarity=-0.045  Sum_probs=102.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCC-CCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHH---H
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGL-LPDNS-TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSD---L  120 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---l  120 (412)
                      .|..+...+...|+.+.+.+.+....+... .++.. ........+...|++++|..+++...+.. +.|...+..   +
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHH
Confidence            344445555555666666555555443211 12221 12222334456677777777777776653 334444432   1


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH
Q 040580          121 MDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSL  200 (412)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  200 (412)
                      .......+..+.+.+.++.. ....+........+...+...|++++|...+++..+... .+...+..+...+...|++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p-~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNP-DDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCH
Confidence            11112234444444444431 111111222334445566677777777777777776532 2345566666677777777


Q ss_pred             HHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          201 TEMETAYGRLKRSRH-LIDK--EGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      ++|...++....... .|+.  ..|..+...+...|++++|.+.+++.
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~  212 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTH  212 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            777777777665421 1222  23334555566666666666666654

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.

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

Probab=99.02  E-value=1.3e-06  Score=79.49  Aligned_cols=300  Identities=8%  Similarity=-0.129  Sum_probs=176.1

Q ss_pred             ccccccccccCCCChHHHHHHHHHhhc---cChhh---HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHH---H
Q 040580           15 KRFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVD---CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCA---L   85 (412)
Q Consensus        15 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~---l   85 (412)
                      .+..+...+...|+.+.+...+....+   .+...   .......+...|++++|.+.+++..+.. +.+...+..   .
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHH
Confidence            334444455556777776666555433   22222   1122334567899999999999988763 334444442   1


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQL  165 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  165 (412)
                      .......+....+.+.++... ...+.+......+...+...|++++|.+.+++..+.. +.++..+..+...+...|++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCH
Confidence            111222455555665555411 1223334556677788899999999999999998765 55567888899999999999


Q ss_pred             HHHHHHHHHHHHCCC-CCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHHHhcccHHHH
Q 040580          166 ELMENTLKEMVSRGF-SVDS--ATGNAFIIYYSRFGSLTEMETAYGRLKRSRH-LIDKEGI-R--AVSFTYLKERKFFML  238 (412)
Q Consensus       166 ~~a~~~~~~m~~~g~-~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~-~--~li~~~~~~~~~~~a  238 (412)
                      ++|...+++...... .|+.  ..|..+...+...|++++|..+++....... .+..... +  .++.-+...|....+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            999999998877532 2232  3455678889999999999999999864432 1222111 1  222333333432222


Q ss_pred             HHH---HHHHhcC-CCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC--c----HhHHHHHHHH--HHccCChh
Q 040580          239 GEF---LRDVGLG-RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP--D----LTTFNIRAVA--FSRMSMFW  306 (412)
Q Consensus       239 ~~~---~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~----~~~~~~ll~~--~~~~g~~~  306 (412)
                      .+.   ....... ..............++...|+.+.|..+++.+......+  .    ..+-..++.+  +...|+.+
T Consensus       245 ~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~  324 (355)
T cd05804         245 DRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYA  324 (355)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHH
Confidence            222   1111111 101111222355667777888888888888877432121  1    1111223333  44778888


Q ss_pred             HHHHHHHHHHh
Q 040580          307 DLHLSLEHMKH  317 (412)
Q Consensus       307 ~a~~~~~~m~~  317 (412)
                      +|.+.+.....
T Consensus       325 ~A~~~L~~al~  335 (355)
T cd05804         325 TALELLGPVRD  335 (355)
T ss_pred             HHHHHHHHHHH
Confidence            88887776543

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.02  E-value=6.1e-07  Score=78.92  Aligned_cols=218  Identities=9%  Similarity=-0.077  Sum_probs=147.4

Q ss_pred             CChHHHHHHHHHHHhCC-CCcC--HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHH
Q 040580           93 GFVLEAQVVWEELLSSS-FVLS--VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELME  169 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~-~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  169 (412)
                      +..+.+..-+.+++... ..|+  ...|..+...+.+.|+.++|...|++..+.+ +.++..|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            45666777777777532 2222  4568888888999999999999999988765 556789999999999999999999


Q ss_pred             HHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC
Q 040580          170 NTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG  248 (412)
Q Consensus       170 ~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  248 (412)
                      ..|++..+.  .| +..++..+..++...|++++|.+.++...+..  |+..........+...++.++|.+.+.+....
T Consensus       119 ~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        119 EAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            999999875  45 35677778888889999999999999988764  33221122222234567788888888654322


Q ss_pred             CCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC-----CCC-cHhHHHHHHHHHHccCChhHHHHHHHHHHhCCC
Q 040580          249 RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG-----FHP-DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESV  320 (412)
Q Consensus       249 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~  320 (412)
                      . ++  ..|.. .......|+...+ ..+..+.+..     +.| ....|..+...+.+.|++++|...|++..+.++
T Consensus       195 ~-~~--~~~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 L-DK--EQWGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             C-Cc--cccHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            2 11  12221 1222234444443 3444444211     111 234677888888889999999999888876553

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

Probab=99.01  E-value=1.2e-05  Score=73.92  Aligned_cols=84  Identities=7%  Similarity=-0.103  Sum_probs=56.2

Q ss_pred             ccccccCCCChHHHHHHHHHhhcc-----ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC
Q 040580           19 VPSHQTHPKNGDLARKIIRYRKQE-----GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG   93 (412)
Q Consensus        19 l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~   93 (412)
                      .+....++|++-..+..|++....     ....|...+......+-++.+..++++..+.    ++..-+--|..+++.+
T Consensus       108 Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d  183 (835)
T KOG2047|consen  108 YLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSD  183 (835)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhcc
Confidence            344455677777777777765432     3345777777777788888888888877753    3333555566677777


Q ss_pred             ChHHHHHHHHHHH
Q 040580           94 FVLEAQVVWEELL  106 (412)
Q Consensus        94 ~~~~a~~~~~~m~  106 (412)
                      ++++|.+.+...+
T Consensus       184 ~~~eaa~~la~vl  196 (835)
T KOG2047|consen  184 RLDEAAQRLATVL  196 (835)
T ss_pred             chHHHHHHHHHhc
Confidence            7777777666654

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

Probab=99.00  E-value=1.1e-06  Score=70.53  Aligned_cols=196  Identities=11%  Similarity=-0.053  Sum_probs=136.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      +...|.-.|.+.|+...|..-+++.++.+ +.+..+|..+...|.+.|+.+.|.+.|++..... +-+-++.|..-.-+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            34456677889999999999999998876 5567889999999999999999999999887654 445568888888888


Q ss_pred             hcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHH
Q 040580          161 KQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLG  239 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  239 (412)
                      ..|.+++|...|++....-.-| -..+|..+.-+..+.|+.+.|...|+.-.+.... .+                    
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~--------------------  173 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FP--------------------  173 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CC--------------------
Confidence            9999999999999888763333 2457777887888899999999999887765421 22                    


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          240 EFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                                     .+.-.+.....+.|++-.|...++.....+. ++..+.-.-|..-...|+.+.+.++=..+
T Consensus       174 ---------------~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         174 ---------------PALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             ---------------hHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence                           3344444445555555555555555544332 55555555555555555555554443333

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

Probab=98.98  E-value=4.8e-07  Score=80.21  Aligned_cols=235  Identities=11%  Similarity=-0.038  Sum_probs=179.7

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHH
Q 040580           90 ANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELME  169 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  169 (412)
                      --.|+...+..-|+..++....+ ...|--+...|....+.++..+.|++..+-+ +-+|++|..-.+...-.+++++|.
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHH
Confidence            34588889999999999876333 3337778888999999999999999998776 677889999888888899999999


Q ss_pred             HHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC
Q 040580          170 NTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG  248 (412)
Q Consensus       170 ~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  248 (412)
                      .=|++....  .| +...|.-+..+.-+.++++++...|++.++. ++..+.+|+-....+...+++++|.+.++....-
T Consensus       415 aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  415 ADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            999998874  44 4566777777777899999999999998875 4556889999999999999999999999874332


Q ss_pred             CCC-------cchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCC
Q 040580          249 RKD-------LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVG  321 (412)
Q Consensus       249 ~~~-------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~  321 (412)
                      .+.       +.+.+--.++..-.+ +++..|..++++..+.. +-....|..|...-.+.|++++|+++|++-..    
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~----  565 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQ----  565 (606)
T ss_pred             ccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH----
Confidence            222       212222233333233 88999999999988653 22357889999999999999999999988543    


Q ss_pred             CCHhhHHHHHHHHHh
Q 040580          322 PDLVTYGCVVDAYLD  336 (412)
Q Consensus       322 p~~~~~~~li~~~~~  336 (412)
                       -..|-.-++++|.-
T Consensus       566 -lArt~~E~~~a~s~  579 (606)
T KOG0547|consen  566 -LARTESEMVHAYSL  579 (606)
T ss_pred             -HHHhHHHHHHHHHH
Confidence             24455556666554

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

Probab=98.90  E-value=1.4e-05  Score=72.45  Aligned_cols=278  Identities=12%  Similarity=-0.019  Sum_probs=182.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .......-|-..+++++...+.+.+.+.. ++....+..-|.++.+.|+..+-..+=.++.+.. +-.+.+|-++.--|.
T Consensus       246 ll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl  323 (611)
T KOG1173|consen  246 LLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYL  323 (611)
T ss_pred             HHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHH
Confidence            33333444556677888888888877765 6667777777777778887777666666776543 455568888877777


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHH
Q 040580          161 KQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGE  240 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  240 (412)
                      ..|+.++|.+.|.+...-... -...|-.+...|+-.|..++|...+...-+.-.. ....+--+---|.+.+.++-|.+
T Consensus       324 ~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G-~hlP~LYlgmey~~t~n~kLAe~  401 (611)
T KOG1173|consen  324 MIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPG-CHLPSLYLGMEYMRTNNLKLAEK  401 (611)
T ss_pred             HhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccC-CcchHHHHHHHHHHhccHHHHHH
Confidence            778888888888776543211 2356777777888888888888877666543111 11112223334667778888888


Q ss_pred             HHHHH-hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHc--CCCC----cHhHHHHHHHHHHccCChhHHHHHHH
Q 040580          241 FLRDV-GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA--GFHP----DLTTFNIRAVAFSRMSMFWDLHLSLE  313 (412)
Q Consensus       241 ~~~~~-~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~  313 (412)
                      +|.+. ...+.+|  ...+-+....-..+.+.+|..+|+.....  .+.+    -..+++.|-.+|.+.+.+++|+..++
T Consensus       402 Ff~~A~ai~P~Dp--lv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q  479 (611)
T KOG1173|consen  402 FFKQALAIAPSDP--LVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQ  479 (611)
T ss_pred             HHHHHHhcCCCcc--hhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHH
Confidence            88764 4444444  77777777777778888888888776521  1111    23356777778888888888888887


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHH
Q 040580          314 HMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFE  366 (412)
Q Consensus       314 ~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~  366 (412)
                      ...... +-+..++.++--.|...|+++.|.+.|.+.- ...|+..+-..++.
T Consensus       480 ~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL-~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  480 KALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL-ALKPDNIFISELLK  530 (611)
T ss_pred             HHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH-hcCCccHHHHHHHH
Confidence            766543 2367777777777778888888888887761 23455544444443

>PF12854 PPR_1: PPR repeat

Probab=98.89  E-value=2.6e-09  Score=59.50  Aligned_cols=32  Identities=22%  Similarity=0.424  Sum_probs=19.4

Q ss_pred             CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580          109 SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus       109 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      |++||..|||+||++|++.|++++|.++|++|
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            45566666666666666666666666666555

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

Probab=98.88  E-value=3.8e-05  Score=70.85  Aligned_cols=297  Identities=11%  Similarity=0.043  Sum_probs=179.7

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhcc--ChhhHHHHHHHHhc----------------CC------ChhHHHHHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQE--GFVDCASLVEDLGR----------------KK------KPHLAHQLVNT   69 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~li~~~~~----------------~~------~~~~a~~~~~~   69 (412)
                      .-+++|.+.|.++|.+++|+.++++..+.  .+.-|+.+.++|++                .+      +++-.+.-|+.
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~  328 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFES  328 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHH
Confidence            34678888889999999999999886553  22233333333322                11      12223333444


Q ss_pred             HHhcCC-----------CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC------HHHHHHHHHHHHccCCHHH
Q 040580           70 VKSEGL-----------LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS------VQVLSDLMDAYGRIGCFNE  132 (412)
Q Consensus        70 m~~~g~-----------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~------~~~~~~li~~~~~~~~~~~  132 (412)
                      +...+.           +-+..+|..-+.  ...|+..+....|.+.++. +.|.      ...|..+.+.|-..|+++.
T Consensus       329 lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~  405 (835)
T KOG2047|consen  329 LMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDD  405 (835)
T ss_pred             HHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHH
Confidence            333210           112333333222  2346677777888887764 2232      3568889999999999999


Q ss_pred             HHHHHHHHhhcCCCCC---HHhHHHHHHHHHhcCChHHHHHHHHHHHHC-----------CCCC------ChHHHHHHHH
Q 040580          133 IISIIDQVSCRNADLL---PEVYSRAISCFGKQGQLELMENTLKEMVSR-----------GFSV------DSATGNAFII  192 (412)
Q Consensus       133 a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----------g~~p------~~~~~~~li~  192 (412)
                      |..+|++..+-..+.-   ..+|......-.+..+++.|+.++.....-           +..+      +...|+..+.
T Consensus       406 aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~D  485 (835)
T KOG2047|consen  406 ARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYAD  485 (835)
T ss_pred             HHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHH
Confidence            9999999876554322   126666666667888899998888765432           1111      1233555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcc-hHHHHHHHHHHhcC---C
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLG-NLLWNLLLLSYAGN---F  268 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~---g  268 (412)
                      .--..|-++....+++.+.+..+. ++.......-.+-...-++++.+.+++-..-.+-|+ ...|+.-+.-+.+.   .
T Consensus       486 leEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~  564 (835)
T KOG2047|consen  486 LEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGT  564 (835)
T ss_pred             HHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCC
Confidence            555678888888999998877653 333333333344455667888888887433333333 36777777666553   4


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHH--HHccCChhHHHHHHHHH
Q 040580          269 KMKSLQREFMRMSEAGFHPDLTTFNIRAVA--FSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       269 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~g~~~~a~~~~~~m  315 (412)
                      .++.|..+|++..+ |++|...-+--|+-+  --+.|....|..++++.
T Consensus       565 klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyera  612 (835)
T KOG2047|consen  565 KLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERA  612 (835)
T ss_pred             CHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            68999999999887 777764333223322  12346666666666653

>PF12854 PPR_1: PPR repeat

Probab=98.87  E-value=2.8e-09  Score=59.33  Aligned_cols=32  Identities=19%  Similarity=0.339  Sum_probs=22.0

Q ss_pred             CCCCcHhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          284 GFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       284 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      |+.||..||++||.+|++.|++++|.++|++|
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            56667777777777777777777777666665

>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=98.84  E-value=1.4e-07  Score=81.97  Aligned_cols=247  Identities=12%  Similarity=-0.003  Sum_probs=161.2

Q ss_pred             CCCChHHHHHHHHHhhcc----ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           25 HPKNGDLARKIIRYRKQE----GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        25 ~~~~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      -.|++..++.-.+ ....    +.....-+.+++...|+.+.++   .+..... .|.......+...+....+-+.+..
T Consensus        13 y~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            4577777775544 2221    2334556677888888766543   4444433 6776666666555544355555655


Q ss_pred             HHHHHHhCCCC-cCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 040580          101 VWEELLSSSFV-LSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG  179 (412)
Q Consensus       101 ~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  179 (412)
                      -++.....+.. .+..........+...|++++|++++++.      .+.+.....+..+.+.++++.|.+.++.|.+. 
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~-  160 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI-  160 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc-
Confidence            55554443333 23334444446677889999999888743      34567788899999999999999999999875 


Q ss_pred             CCCChHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchH
Q 040580          180 FSVDSATGNAFIIYYS----RFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNL  255 (412)
Q Consensus       180 ~~p~~~~~~~li~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  255 (412)
                       ..|. +...+..++.    ..+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+.-...++ +..
T Consensus       161 -~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d  236 (290)
T PF04733_consen  161 -DEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPD  236 (290)
T ss_dssp             -SCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHH
T ss_pred             -CCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHH
Confidence             3343 3333444443    334689999999998664 5678899999999999999999999999986444433 457


Q ss_pred             HHHHHHHHHhcCCCh-HHHHHHHHHHHHcCCCCcH
Q 040580          256 LWNLLLLSYAGNFKM-KSLQREFMRMSEAGFHPDL  289 (412)
Q Consensus       256 ~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~p~~  289 (412)
                      +...++......|+. +.+.+.+.+++..  .|+.
T Consensus       237 ~LaNliv~~~~~gk~~~~~~~~l~qL~~~--~p~h  269 (290)
T PF04733_consen  237 TLANLIVCSLHLGKPTEAAERYLSQLKQS--NPNH  269 (290)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHCHHH--TTTS
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHh--CCCC
Confidence            777788887888877 7788888888865  5553

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.83  E-value=3.4e-05  Score=73.09  Aligned_cols=229  Identities=14%  Similarity=0.099  Sum_probs=140.6

Q ss_pred             ccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhc-CC--------CCCHHhHHHHHHHHHh
Q 040580           21 SHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSE-GL--------LPDNSTLCALMLCYAN   91 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~--------~p~~~~~~~ll~~~~~   91 (412)
                      +.|...|+.+.|.+-.+.+.  +...|..|.+.|.+.++.+-|.-.+-.|... |.        .|+ .+=..+.-....
T Consensus       736 SfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAie  812 (1416)
T KOG3617|consen  736 SFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIE  812 (1416)
T ss_pred             eEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHH
Confidence            46788999999987777654  4457999999999999999998888877542 11        222 222222233567


Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENT  171 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  171 (412)
                      .|.+++|+.+|.+-.+         |..|=+.|-..|.+++|.++-+.=.+-.+   ..||..-..-+-..++.+.|++.
T Consensus       813 LgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  813 LGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             HhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHH
Confidence            8999999999988876         34455667778999999887664332222   24777777777777888888887


Q ss_pred             HHH----------HHHCCC---------CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040580          172 LKE----------MVSRGF---------SVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE  232 (412)
Q Consensus       172 ~~~----------m~~~g~---------~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  232 (412)
                      |++          |.....         ..|...|.-.....-..|+.+.|..+|...+.         |-+++...|-.
T Consensus       881 yEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~q  951 (1416)
T KOG3617|consen  881 YEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQ  951 (1416)
T ss_pred             HHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeec
Confidence            764          222211         12344455555555567788888777766553         33344444444


Q ss_pred             ccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHH
Q 040580          233 RKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       233 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                      |+.++|.++-++-+      |..+...|...|-..|++.+|...|.+
T Consensus       952 Gk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  952 GKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             cCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            55555544444321      223344444444444555444444443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.79  E-value=4.5e-05  Score=65.40  Aligned_cols=370  Identities=8%  Similarity=0.001  Sum_probs=194.7

Q ss_pred             cccccCCCChHHHHHHHHHhhcc---ChhhHHH-HHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           20 PSHQTHPKNGDLARKIIRYRKQE---GFVDCAS-LVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        20 ~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      +.-+....++.-|+.+++.-...   .....+. +..++-..|++++|...+.-+.... .|+...+..|....--.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            44455667788888887654321   1112222 3445567788999998888776643 56666666666555667888


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      .+|.++-....     .+...-..|+..-.+.++-++-..+-+.+.+..     .---+|.+..-..-.+++|++++++.
T Consensus       108 ~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-----EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-----EDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-----HHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            88877655432     233344445556667777777666655553321     22223333334445789999999998


Q ss_pred             HHCCCCCChHHHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cccHH----------------
Q 040580          176 VSRGFSVDSATGNAFII-YYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLK--ERKFF----------------  236 (412)
Q Consensus       176 ~~~g~~p~~~~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--~~~~~----------------  236 (412)
                      ...  .|.-...|..+. +|.+..-++.+.+++..-.+.- +-++...|.......+  .|+..                
T Consensus       178 L~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~  254 (557)
T KOG3785|consen  178 LQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYP  254 (557)
T ss_pred             Hhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccch
Confidence            875  345555554443 4567777788888887766542 2233333333333322  12221                


Q ss_pred             HHHHHHHHH---------------hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHH----
Q 040580          237 MLGEFLRDV---------------GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAV----  297 (412)
Q Consensus       237 ~a~~~~~~~---------------~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~----  297 (412)
                      .+..+.+.=               +.-..-  +.+--.|+--|.+++++.+|..+.+++.-  ..|-....-.+..    
T Consensus       255 f~~~l~rHNLVvFrngEgALqVLP~L~~~I--PEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalG  330 (557)
T KOG3785|consen  255 FIEYLCRHNLVVFRNGEGALQVLPSLMKHI--PEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALG  330 (557)
T ss_pred             hHHHHHHcCeEEEeCCccHHHhchHHHhhC--hHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhh
Confidence            111111110               000000  13334455567788888888887666541  1222211111111    


Q ss_pred             -HHHccCChhHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhccccchHHHHHHhccC-CCCCCcccHHHHHHHHhcCCcc
Q 040580          298 -AFSRMSMFWDLHLSLEHMKHESVGPD-LVTYGCVVDAYLDKRLGRNLDFGLSKMNL-DDSPVVSTDPYVFEAFGKGDFH  374 (412)
Q Consensus       298 -~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~p~~~~~~~li~~~~~~~~~  374 (412)
                       -......+.-|...|...-..+..-| ..--.++..++.-..+++++.-+++.++. -...|...+|..-.-+..|++.
T Consensus       331 Qe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N~AQAk~atgny~  410 (557)
T KOG3785|consen  331 QETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLNLAQAKLATGNYV  410 (557)
T ss_pred             hhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHhcChH
Confidence             11112223445555544333333222 11222344444455666777777777633 3334444455433333447777


Q ss_pred             cHHHHHHHhcc---CchHHHHHHHH-HHHHcCccccc
Q 040580          375 SSSEAFLEFKR---QRKWTYRKLIA-VYLKKQLRRNQ  407 (412)
Q Consensus       375 ~a~~~~~~~~~---~~~~~~~~l~~-~~~~~g~~~~a  407 (412)
                      +|.++|.++..   +|..+|.+++. +|.+.|+.+-|
T Consensus       411 eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  411 EAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHH
Confidence            77777777665   45566655443 45556655544

>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=98.78  E-value=9.4e-07  Score=76.77  Aligned_cols=81  Identities=17%  Similarity=0.093  Sum_probs=42.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcccc-chHHHH
Q 040580          268 FKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLG-RNLDFG  346 (412)
Q Consensus       268 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~-~~a~~~  346 (412)
                      +.+.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+....+.. +..+...++.+....|+. +.+.++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHH
Confidence            3466666666665532 3455566666666666666666666666665433221 344444555555555555 445556


Q ss_pred             HHhc
Q 040580          347 LSKM  350 (412)
Q Consensus       347 ~~~m  350 (412)
                      +.++
T Consensus       259 l~qL  262 (290)
T PF04733_consen  259 LSQL  262 (290)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            6665

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=98.78  E-value=1.8e-06  Score=71.89  Aligned_cols=291  Identities=14%  Similarity=0.019  Sum_probs=154.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH-HHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR-AISCF  159 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~  159 (412)
                      -|.+.+..+.+..+++.|.+++..-.+.. +.+....+.|..+|-...++..|...++++...  .|...-|.. -.+.+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            34555555666666666666666655543 335566666666666666777777777766432  233333322 13445


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHH--HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIY--YSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFM  237 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  237 (412)
                      -+.+.+..|+++...|...   |....-..-+.+  .-+.+++..+..+.+++...|   +..+.+.......+.|+++.
T Consensus        89 Y~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEa  162 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEA  162 (459)
T ss_pred             HHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHH
Confidence            5666677777777666553   222221111221  224566667777776655332   33333334444456677777


Q ss_pred             HHHHHHHH-hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC-------------CcHhH--------HHHH
Q 040580          238 LGEFLRDV-GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFH-------------PDLTT--------FNIR  295 (412)
Q Consensus       238 a~~~~~~~-~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-------------p~~~~--------~~~l  295 (412)
                      |.+-|+.. ...+..| ..+||..+ ++.+.|+.+.|++...++.+.|++             ||+.+        -+.+
T Consensus       163 AvqkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal  240 (459)
T KOG4340|consen  163 AVQKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSAL  240 (459)
T ss_pred             HHHHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHH
Confidence            77766653 3333433 46676655 455678899999999999988875             22211        1223


Q ss_pred             HHH-------HHccCChhHHHHHHHHHHh-CCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHH
Q 040580          296 AVA-------FSRMSMFWDLHLSLEHMKH-ESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFE  366 (412)
Q Consensus       296 l~~-------~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~  366 (412)
                      +.+       +-+.|+.+.|.+-+..|-- ..-..|+.|...+.-.-. .+++.+-.+-+..+ ...+ ....||..++-
T Consensus       241 ~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFANlLl  318 (459)
T KOG4340|consen  241 VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFANLLL  318 (459)
T ss_pred             HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHHHHHH
Confidence            333       3355667777766666632 223345555544321111 22233333223333 3233 23456666666


Q ss_pred             HHhc-CCcccHHHHHHHhc
Q 040580          367 AFGK-GDFHSSSEAFLEFK  384 (412)
Q Consensus       367 ~~~~-~~~~~a~~~~~~~~  384 (412)
                      .||+ .-++.|..++.+-.
T Consensus       319 lyCKNeyf~lAADvLAEn~  337 (459)
T KOG4340|consen  319 LYCKNEYFDLAADVLAENA  337 (459)
T ss_pred             HHhhhHHHhHHHHHHhhCc
Confidence            6666 44555666666543

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

Probab=98.77  E-value=4e-05  Score=66.99  Aligned_cols=281  Identities=13%  Similarity=0.020  Sum_probs=163.7

Q ss_pred             CCChhHHHHHHHHHHhc-CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHH
Q 040580           57 KKKPHLAHQLVNTVKSE-GLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIIS  135 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  135 (412)
                      .++-..|.+++-.+... -++-|.+....+...+...|+.++|...|+.....+ +-+........-.+.+.|+.++...
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~  287 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDSA  287 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHHH
Confidence            34444454444333322 244456667777777788888888888887776543 2233333444444556677776666


Q ss_pred             HHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040580          136 IIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH  215 (412)
Q Consensus       136 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  215 (412)
                      +...+-... ..+...|-.-.......++++.|+.+-++..+.... +...+-.=-..+...|++++|.-.|+..+... 
T Consensus       288 L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-  364 (564)
T KOG1174|consen  288 LMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-  364 (564)
T ss_pred             HHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-
Confidence            666654332 223334444444555667777777777766654211 23334333355667788888888887776543 


Q ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHH----HhcCCCCcchHHHHHHH-HHH-hcCCChHHHHHHHHHHHHcCCCCc-
Q 040580          216 LIDKEGIRAVSFTYLKERKFFMLGEFLRD----VGLGRKDLGNLLWNLLL-LSY-AGNFKMKSLQREFMRMSEAGFHPD-  288 (412)
Q Consensus       216 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~li-~~~-~~~g~~~~a~~~~~~m~~~~~~p~-  288 (412)
                      +-+..+|..|++.|...|++.+|.-+-+.    |+...     .+...+. ..+ -....-++|..+++.-.+.  .|+ 
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA-----~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y  437 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSA-----RSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIY  437 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcch-----hhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCcc
Confidence            23567888888888888888877655443    22211     2222221 111 1122345666666655432  555 


Q ss_pred             HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          289 LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       289 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      ....+.+...|...|..+++..+++.-..  ..||...-+.|-+.+.....+.++.+.|...
T Consensus       438 ~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~A  497 (564)
T KOG1174|consen  438 TPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKA  497 (564)
T ss_pred             HHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            34555666667777777788777776544  4677777777777777777777776666555

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

Probab=98.77  E-value=4.1e-05  Score=66.95  Aligned_cols=265  Identities=8%  Similarity=-0.077  Sum_probs=192.8

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNS-TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM  121 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  121 (412)
                      |+.....+.+.+...|+.++|+..|++....  .|+.. ....-.-.+.+.|+.+....+...+.... +-+..-|-.-.
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~  307 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHA  307 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhh
Confidence            7788889999999999999999999998864  34332 22222333567899999888888887643 23444555556


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCH
Q 040580          122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSL  200 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~  200 (412)
                      .......++..|+.+-++..+.+ +-+...|-.=-..+...|++++|.-.|+..+..  .| +...|.-|+..|...|++
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhhchH
Confidence            66677889999999988876544 222234444446677889999999999988764  54 668999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHH-HHHH-hcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHH
Q 040580          201 TEMETAYGRLKRSRHLIDKEGIRAVS-FTYL-KERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFM  278 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~~~~~~~~~~li-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  278 (412)
                      .+|.-.-++..+. .+.+..+...+- ..+. ...--++|.+++++--...|.. ..+-+.+...+...|+.++++.+++
T Consensus       385 kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y-~~AV~~~AEL~~~Eg~~~D~i~LLe  462 (564)
T KOG1174|consen  385 KEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIY-TPAVNLIAELCQVEGPTKDIIKLLE  462 (564)
T ss_pred             HHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCcc-HHHHHHHHHHHHhhCccchHHHHHH
Confidence            9988776665432 122333333331 2222 2233578888888754444432 3567778888999999999999999


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          279 RMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       279 ~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      +-...  .||....+.|.+.+...+.++++.+.|.....
T Consensus       463 ~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  463 KHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            98754  79999999999999999999999999987765

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.74  E-value=3.8e-06  Score=76.25  Aligned_cols=252  Identities=11%  Similarity=0.054  Sum_probs=172.0

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      +.+.|++.+|.-.|+..++.+ |-+...|-.|.......++-..|+..+++..+.+ +-+..+.-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            456788888888888888876 6678889888888888888888888888887654 34455777777888888888888


Q ss_pred             HHHHHHHHHCCCC--------CChHHHHHHHHHHHhcCCHHHHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcccHHHHH
Q 040580          169 ENTLKEMVSRGFS--------VDSATGNAFIIYYSRFGSLTEMETAYGRL-KRSRHLIDKEGIRAVSFTYLKERKFFMLG  239 (412)
Q Consensus       169 ~~~~~~m~~~g~~--------p~~~~~~~li~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~~li~~~~~~~~~~~a~  239 (412)
                      +..++.-.....+        ++...-..  ..+.....+....++|-++ ...+..+|+.+...|--.|--.|++++|.
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            8888776543210        00000000  1122222333444444444 34455578888888888888888999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHH--
Q 040580          240 EFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMK--  316 (412)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~--  316 (412)
                      +.|+..-...|+ |...||-|...++...+.++|+..|++..+.  +|+ ++....|.-+|...|.+++|.+.|-..+  
T Consensus       451 Dcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  451 DCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            988876555554 6688999999999888999999999888865  777 4555567778888888888887775543  


Q ss_pred             -hC------CCCCCHhhHHHHHHHHHhccccchHHHHH
Q 040580          317 -HE------SVGPDLVTYGCVVDAYLDKRLGRNLDFGL  347 (412)
Q Consensus       317 -~~------g~~p~~~~~~~li~~~~~~~~~~~a~~~~  347 (412)
                       ..      +..++...|.+|=.++.-.++.|.+.++.
T Consensus       528 q~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a~  565 (579)
T KOG1125|consen  528 QRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEAA  565 (579)
T ss_pred             hhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHhc
Confidence             22      12223456666665666566665444443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.74  E-value=3.6e-05  Score=65.96  Aligned_cols=147  Identities=10%  Similarity=-0.037  Sum_probs=72.1

Q ss_pred             ccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           19 VPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        19 l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      +..++.+.|++++|..+++.+.+.   +...+-.+.-.+--.|.+.+|.++-....+     ++..-..|++..-+.++-
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndE  137 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDE  137 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcH
Confidence            445677899999999999987654   333444444444445667777766554332     222333344444455555


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH-HHHHHHhcCChHHHHHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR-AISCFGKQGQLELMENTLKE  174 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~g~~~~a~~~~~~  174 (412)
                      ++-..+.+.+...     ..---+|....-..-.+.+|.+++.+....+  |+-...|. +.-+|.+..-++-+.++++-
T Consensus       138 k~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~v  210 (557)
T KOG3785|consen  138 KRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKV  210 (557)
T ss_pred             HHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHH
Confidence            5554444444321     1111222222222234555666665554322  11112222 22334455555555555554


Q ss_pred             HHH
Q 040580          175 MVS  177 (412)
Q Consensus       175 m~~  177 (412)
                      ..+
T Consensus       211 YL~  213 (557)
T KOG3785|consen  211 YLR  213 (557)
T ss_pred             HHH
Confidence            444

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

Probab=98.73  E-value=0.00011  Score=67.94  Aligned_cols=250  Identities=15%  Similarity=-0.000  Sum_probs=161.8

Q ss_pred             CCCChHHHHHHHHHhhccC---hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           25 HPKNGDLARKIIRYRKQEG---FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVV  101 (412)
Q Consensus        25 ~~~~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  101 (412)
                      ..+++...++..+.+.++.   ..|.....-.+...|+-++|.+....-.+..++ +...|+.+.-.+-...++++|...
T Consensus        19 E~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHH
Confidence            3445555555555544431   122222222345568888998888777664433 667788887777778899999999


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC-C
Q 040580          102 WEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG-F  180 (412)
Q Consensus       102 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~  180 (412)
                      |....+.+ +-|...+.-+--.-++.|+++.....-.+..+.. +-....|..+..+..-.|+...|..++++..+.. -
T Consensus        98 y~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~  175 (700)
T KOG1156|consen   98 YRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNT  175 (700)
T ss_pred             HHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            99999876 6677888888888888888888888777776543 2333488888888899999999999999987764 2


Q ss_pred             CCChHHHHHHH------HHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcc
Q 040580          181 SVDSATGNAFI------IYYSRFGSLTEMETAYGRLKRSRHLIDKE-GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLG  253 (412)
Q Consensus       181 ~p~~~~~~~li------~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  253 (412)
                      .|+...|.-..      ....+.|.++.|.+.+..-...  ..|.. .-..-...+.+.+++++|..++..+-...++  
T Consensus       176 ~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPd--  251 (700)
T KOG1156|consen  176 SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPD--  251 (700)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCch--
Confidence            45665554332      3345677777777776554432  11222 2233456677889999999999987665554  


Q ss_pred             hHHHHH-HHHHHhc-CCChHHHHHHHHHHH
Q 040580          254 NLLWNL-LLLSYAG-NFKMKSLQREFMRMS  281 (412)
Q Consensus       254 ~~~~~~-li~~~~~-~g~~~~a~~~~~~m~  281 (412)
                      ...|.- +..++.+ .+..+....+|....
T Consensus       252 n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls  281 (700)
T KOG1156|consen  252 NLDYYEGLEKALGKIKDMLEALKALYAILS  281 (700)
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            344444 4444432 233333334555444

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

Probab=98.70  E-value=1.4e-05  Score=74.64  Aligned_cols=236  Identities=12%  Similarity=0.047  Sum_probs=183.6

Q ss_pred             CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHH
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAF  190 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  190 (412)
                      +|--..-..+...+.+.|-...|..+|++.         ..|.-+|-+|+..|+..+|..+..+..++  +||...|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            344444456778888999999999999987         47888999999999999999999888873  6899999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHH-HhcCCCCcchHHHHHHHHHHhcCCC
Q 040580          191 IIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRD-VGLGRKDLGNLLWNLLLLSYAGNFK  269 (412)
Q Consensus       191 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~li~~~~~~g~  269 (412)
                      .+......-+++|.++.+.....       .-..+.....+.+++.++.+.|+. +...+..+  .+|-.+-.+..+.++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~--~~wf~~G~~ALqlek  534 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQL--GTWFGLGCAALQLEK  534 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccch--hHHHhccHHHHHHhh
Confidence            98888888888999988775432       111222223346889999998885 45555554  889888899999999


Q ss_pred             hHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHH
Q 040580          270 MKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLS  348 (412)
Q Consensus       270 ~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~  348 (412)
                      ++.|.+.|..-...  .|| ...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|.+++.
T Consensus       535 ~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~  611 (777)
T KOG1128|consen  535 EQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYH  611 (777)
T ss_pred             hHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHH
Confidence            99999999998854  566 6789999999999999999999999998877 4456677777778889999999999998


Q ss_pred             hc---cCCCCCCcccHHHHHHHHhc
Q 040580          349 KM---NLDDSPVVSTDPYVFEAFGK  370 (412)
Q Consensus       349 ~m---~~~~~p~~~~~~~li~~~~~  370 (412)
                      ++   +.... |......++....+
T Consensus       612 rll~~~~~~~-d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  612 RLLDLRKKYK-DDEVLLIIVRTVLE  635 (777)
T ss_pred             HHHHhhhhcc-cchhhHHHHHHHHh
Confidence            87   22222 55555555555544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.68  E-value=0.00026  Score=64.26  Aligned_cols=73  Identities=7%  Similarity=-0.175  Sum_probs=51.4

Q ss_pred             hhhccccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 040580           12 FKFKRFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALML   87 (412)
Q Consensus        12 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~   87 (412)
                      .-.+|..|++-+..+ -.++++..++++...   ....|..-|..-...++++....+|.+-...-  .+...|..-|+
T Consensus        19 di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lYl~   94 (656)
T KOG1914|consen   19 DIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLYLS   94 (656)
T ss_pred             cHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHHHH
Confidence            335566777766544 788888888887754   56678888888888888888888888876542  34555555444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.66  E-value=0.00013  Score=75.12  Aligned_cols=331  Identities=8%  Similarity=-0.113  Sum_probs=187.4

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC--C----CcC--HHHHHHHHHHHH
Q 040580           54 LGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS--F----VLS--VQVLSDLMDAYG  125 (412)
Q Consensus        54 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~----~~~--~~~~~~li~~~~  125 (412)
                      ....|+++.+..+++.+.......+..........+...|+++++..+++.....-  .    .+.  ......+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            44556676666666655322111122223334445567789999888888765421  0    111  122233344556


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCC-CChHHHHHHHHHHHh
Q 040580          126 RIGCFNEIISIIDQVSCRNADLLP----EVYSRAISCFGKQGQLELMENTLKEMVSR----GFS-VDSATGNAFIIYYSR  196 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~~~~li~~~~~  196 (412)
                      ..|++++|...+++..+.....+.    ...+.+...+...|++++|...+.+....    |-. +...+...+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            789999999998887653111111    14455566677889999999888877542    111 112344455667778


Q ss_pred             cCCHHHHHHHHHHHHh----CCCC--C-CHHHHHHHHHHHHhcccHHHHHHHHHHHhc----CCCCcchHHHHHHHHHHh
Q 040580          197 FGSLTEMETAYGRLKR----SRHL--I-DKEGIRAVSFTYLKERKFFMLGEFLRDVGL----GRKDLGNLLWNLLLLSYA  265 (412)
Q Consensus       197 ~g~~~~a~~~~~~~~~----~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~li~~~~  265 (412)
                      .|+++.|...+++...    .+..  + ....+..+...+...|++++|...+.+...    .........+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            8999999888877654    2221  1 223344555666777999999888776421    111112344555666777


Q ss_pred             cCCChHHHHHHHHHHHHcCC-CCcHhHH-----HHHHHHHHccCChhHHHHHHHHHHhCCCCCC---HhhHHHHHHHHHh
Q 040580          266 GNFKMKSLQREFMRMSEAGF-HPDLTTF-----NIRAVAFSRMSMFWDLHLSLEHMKHESVGPD---LVTYGCVVDAYLD  336 (412)
Q Consensus       266 ~~g~~~~a~~~~~~m~~~~~-~p~~~~~-----~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~  336 (412)
                      ..|+.+.|...+.+.....- ......+     ...+..+...|+.+.|...+...........   ...+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            88999999888887753210 1111111     1122344557888888888766543211111   1113455667777


Q ss_pred             ccccchHHHHHHhc-cC----CCCCCc-ccHHHHHHHHhc-CCcccHHHHHHHhc
Q 040580          337 KRLGRNLDFGLSKM-NL----DDSPVV-STDPYVFEAFGK-GDFHSSSEAFLEFK  384 (412)
Q Consensus       337 ~~~~~~a~~~~~~m-~~----~~~p~~-~~~~~li~~~~~-~~~~~a~~~~~~~~  384 (412)
                      .|+.++|...+++. ..    +..++. .+...+-.++.+ |+..+|.+.+.+..
T Consensus       704 ~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al  758 (903)
T PRK04841        704 LGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEAL  758 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888888776 22    221111 122222233444 88888888877643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.66  E-value=0.00017  Score=74.33  Aligned_cols=325  Identities=10%  Similarity=-0.043  Sum_probs=199.2

Q ss_pred             CCCChHHHHHHHHHhhc----cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcC--C----CCCH--HhHHHHHHHHHhc
Q 040580           25 HPKNGDLARKIIRYRKQ----EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEG--L----LPDN--STLCALMLCYANN   92 (412)
Q Consensus        25 ~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~----~p~~--~~~~~ll~~~~~~   92 (412)
                      ..|+++.+...++.++.    .+..........+...|++++|..++......-  .    .|..  .....+...+...
T Consensus       386 ~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  465 (903)
T PRK04841        386 NQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIND  465 (903)
T ss_pred             hcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhC
Confidence            45566666666665532    122223334445567789999999988775421  0    1111  1222233445678


Q ss_pred             CChHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC---CCC--HHhHHHHHHHHHhcC
Q 040580           93 GFVLEAQVVWEELLSSSFVLS----VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA---DLL--PEVYSRAISCFGKQG  163 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~~~~~li~~~~~~g  163 (412)
                      |++++|...++...+.-...+    ....+.+...+...|++++|...+++......   .+.  ..++..+...+...|
T Consensus       466 g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G  545 (903)
T PRK04841        466 GDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG  545 (903)
T ss_pred             CCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC
Confidence            999999999998876311112    23456677778889999999999988754311   111  124455667788899


Q ss_pred             ChHHHHHHHHHHHH----CCCC--C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhc
Q 040580          164 QLELMENTLKEMVS----RGFS--V-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSR--HLI--DKEGIRAVSFTYLKE  232 (412)
Q Consensus       164 ~~~~a~~~~~~m~~----~g~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~--~~~~~~~li~~~~~~  232 (412)
                      ++++|...+++...    .|..  | ....+..+...+...|++++|...+++.....  ..+  ....+..+...+...
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            99999999887654    2221  1 12334445556677899999999888775431  112  233444456677788


Q ss_pred             ccHHHHHHHHHHHhcC--CCCcchHHH-----HHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH---hHHHHHHHHHHcc
Q 040580          233 RKFFMLGEFLRDVGLG--RKDLGNLLW-----NLLLLSYAGNFKMKSLQREFMRMSEAGFHPDL---TTFNIRAVAFSRM  302 (412)
Q Consensus       233 ~~~~~a~~~~~~~~~~--~~~~~~~~~-----~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~---~~~~~ll~~~~~~  302 (412)
                      |++++|.+.+.+....  .... ...+     ...+..+...|+.+.|...+............   ..+..+..++...
T Consensus       626 G~~~~A~~~l~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~  704 (903)
T PRK04841        626 GDLDNARRYLNRLENLLGNGRY-HSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILL  704 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhcccc-cHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHc
Confidence            9999998888775221  1110 0111     11224455678999998887765532111111   1134566678888


Q ss_pred             CChhHHHHHHHHHHh----CCCCCC-HhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          303 SMFWDLHLSLEHMKH----ESVGPD-LVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       303 g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      |+.++|..++.+...    .|..++ ..+...+-.++.+.|+.++|.+.+.+.
T Consensus       705 g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~A  757 (903)
T PRK04841        705 GQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEA  757 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999888754    343332 345556667788899999998888777

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

Probab=98.64  E-value=3.4e-05  Score=77.01  Aligned_cols=238  Identities=8%  Similarity=-0.045  Sum_probs=169.4

Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCH-----HhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580          102 WEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLP-----EVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus       102 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      |+++.... |-+...|-..|......++.+.|.+++++.... +.+..     ..|.++++.-...|.-+...++|++..
T Consensus      1447 ferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAc 1524 (1710)
T KOG1070|consen 1447 FERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERAC 1524 (1710)
T ss_pred             HHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHH
Confidence            34444332 445677888888889999999999999887643 21211     277788887778888888889999888


Q ss_pred             HCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC-cchH
Q 040580          177 SRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD-LGNL  255 (412)
Q Consensus       177 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~  255 (412)
                      +.. . ....|..|...|.+.+..++|.++++.|.+.- .....+|...+..+.+..+-+.|.+++.+.-..-+. --..
T Consensus      1525 qyc-d-~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~ 1601 (1710)
T KOG1070|consen 1525 QYC-D-AYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVE 1601 (1710)
T ss_pred             Hhc-c-hHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHH
Confidence            741 1 23567788889999999999999999988752 256778888999999988888888888875333222 1123


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH--hhHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDL--VTYGCVVDA  333 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~  333 (412)
                      ...-.+..-.+.|+.+.+..+|+.....- +--...|+..++.-.+.|+.+.+..+|++.+..++.|-.  ..|...+..
T Consensus      1602 ~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLey 1680 (1710)
T KOG1070|consen 1602 FISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEY 1680 (1710)
T ss_pred             HHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHH
Confidence            44455555667899999999998887542 224678899999999999999999999999888887743  345555544


Q ss_pred             HHhccccchHHH
Q 040580          334 YLDKRLGRNLDF  345 (412)
Q Consensus       334 ~~~~~~~~~a~~  345 (412)
                      --..|+-+.++.
T Consensus      1681 Ek~~Gde~~vE~ 1692 (1710)
T KOG1070|consen 1681 EKSHGDEKNVEY 1692 (1710)
T ss_pred             HHhcCchhhHHH
Confidence            444555544433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=4.4e-05  Score=63.90  Aligned_cols=287  Identities=12%  Similarity=-0.028  Sum_probs=168.7

Q ss_pred             cccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHH-HHHHHHh
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCA-LMLCYAN   91 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~~~~   91 (412)
                      ...++..+.+..++++|++++..-.++   +....+.+..+|-...++..|-+.++++-..  .|...-|.. -...+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYK   90 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHH
Confidence            444455556677788888877766554   4455667777777888888888888888764  455555543 2345567


Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH--HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA--YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELME  169 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  169 (412)
                      .+.+..|+++...|...   |+...-..-+.+  .-..+++..+..++++....+   +.++.+..-....+.|+++.|.
T Consensus        91 A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAv  164 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAV  164 (459)
T ss_pred             hcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHH
Confidence            77888888888777642   222222222222  224577777777777775333   2345555555556889999999


Q ss_pred             HHHHHHHHC-CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---------------------HHHHHHH
Q 040580          170 NTLKEMVSR-GFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKE---------------------GIRAVSF  227 (412)
Q Consensus       170 ~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---------------------~~~~li~  227 (412)
                      +-|+...+- |..| ...|+..+ ++.+.|+.+.|.+...++.+.|++-.+.                     .-+.++.
T Consensus       165 qkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  165 QKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            999987764 5554 66787665 4557788999999999999888653221                     1122222


Q ss_pred             H-------HHhcccHHHHHHHHHHHhcCC-CCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHH
Q 040580          228 T-------YLKERKFFMLGEFLRDVGLGR-KDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAF  299 (412)
Q Consensus       228 ~-------~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  299 (412)
                      +       +.+.|+++.|.+.+-.|.... .+.|++|...+.-.-+ .+++.+...-+.-+.+.. +-...||..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~n-PfP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQN-PFPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            2       233466666666666553321 2234455544332211 233333333334443332 11235666666666


Q ss_pred             HccCChhHHHHHHHH
Q 040580          300 SRMSMFWDLHLSLEH  314 (412)
Q Consensus       300 ~~~g~~~~a~~~~~~  314 (412)
                      |+..-++.|-.++.+
T Consensus       321 CKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAE  335 (459)
T ss_pred             hhhHHHhHHHHHHhh
Confidence            666666666655544

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.63  E-value=1.1e-05  Score=68.78  Aligned_cols=183  Identities=20%  Similarity=0.067  Sum_probs=93.0

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC---HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH---hH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS---VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE---VY  152 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~  152 (412)
                      ...+..+...+...|+++.|...++++.+.. +.+   ..++..+..++.+.|++++|...++++.+.. +-++.   ++
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHHHH
Confidence            4445555555666666666666666665532 111   1345555666666666666666666665432 11121   23


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHHHHCCCCCChH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 040580          153 SRAISCFGKQ--------GQLELMENTLKEMVSRGFSVDSA-TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIR  223 (412)
Q Consensus       153 ~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  223 (412)
                      ..+-.++...        |++++|.+.|+...+.  .|+.. ....+... ..   ...      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---HHH------HHH--------HHHH
Confidence            3333333322        5566677777666654  23221 11111111 00   000      000        0011


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHhcCCCC-c-chHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          224 AVSFTYLKERKFFMLGEFLRDVGLGRKD-L-GNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       224 ~li~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      .+...|.+.|++++|...+++.....++ + ....+..+..++.+.|++++|...++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3444566667777777766665433221 1 2356777777888888888888777776643

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).

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

Probab=98.59  E-value=9.4e-05  Score=74.05  Aligned_cols=225  Identities=11%  Similarity=0.016  Sum_probs=165.9

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCc---CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH-hH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSS-SFVL---SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE-VY  152 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~  152 (412)
                      +...|-.-|.-..+.++.++|.++.++.++. ++.-   -...|.++++.-...|.-+...++|++..+..   ++. +|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc---d~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC---DAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc---chHHHH
Confidence            3455777777788888999999999888763 1111   23567788887777788888889999887542   333 78


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHL-IDKEGIRAVSFTYLK  231 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~  231 (412)
                      ..|...|.+.+..++|-++++.|.++ +.-....|...+..+.+.++-+.|..++.+..+.-.+ -........++.-.+
T Consensus      1534 ~~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 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            88889999999999999999999876 2235677888888888888888899988887765322 134455666667778


Q ss_pred             cccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH--hHHHHHHHHHHccCChhH
Q 040580          232 ERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDL--TTFNIRAVAFSRMSMFWD  307 (412)
Q Consensus       232 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~  307 (412)
                      .|+.+.+..+|+..-...|. -...|+..|..=.++|+.+.+..+|++....++.|-.  .-|.--+..--+.|+-+.
T Consensus      1613 ~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            89999988888876444433 2388999999999999999999999999998887753  344444443344454433

>PLN02789 farnesyltranstransferase

Probab=98.57  E-value=0.00025  Score=62.64  Aligned_cols=128  Identities=11%  Similarity=0.017  Sum_probs=62.9

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-HHhHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           48 ASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD-NSTLCALMLCYANNG-FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      +.+-..+...++.++|+.+.+++++.  .|+ ..+|+.--.++...| ++++++..++.+.+.. +.+..+|+.....+.
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~  117 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHH
Confidence            33334444555666666666666553  232 223444333444444 3556666666655543 334445554444444


Q ss_pred             ccCCH--HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 040580          126 RIGCF--NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG  179 (412)
Q Consensus       126 ~~~~~--~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  179 (412)
                      +.|+.  +++..+++++.+.+ +-+-.+|+.....+...|+++++++.++++.+.+
T Consensus       118 ~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d  172 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED  172 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC
Confidence            44432  34455555554443 2333455555555555555555555555555543

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

Probab=98.55  E-value=1.1e-05  Score=66.24  Aligned_cols=119  Identities=6%  Similarity=-0.026  Sum_probs=56.6

Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH-HhcCC--hHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF-GKQGQ--LELM  168 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-~~~g~--~~~a  168 (412)
                      .++.+++...++...+.+ +.|...|..|...|...|++++|...|++..+.. +-++..+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            334444444444444443 4445555555555555555555555555554433 23344444444432 34344  2555


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          169 ENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       169 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      .+++++..+.... +...+..+...+.+.|++++|...|+.+.+.
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5555555544222 3344444444555555555555555555443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.55  E-value=8.1e-06  Score=63.30  Aligned_cols=91  Identities=12%  Similarity=0.098  Sum_probs=45.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           85 LMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ  164 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  164 (412)
                      +...+...|++++|...|+...... +.+...|..+..++.+.|++++|...|++....+ +.++..+..+..++...|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            3444445555555555555554443 3344555555555555555555555555554433 3344455555555555555


Q ss_pred             hHHHHHHHHHHHH
Q 040580          165 LELMENTLKEMVS  177 (412)
Q Consensus       165 ~~~a~~~~~~m~~  177 (412)
                      +++|...|+...+
T Consensus       108 ~~eAi~~~~~Al~  120 (144)
T PRK15359        108 PGLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.54  E-value=4.4e-05  Score=71.50  Aligned_cols=170  Identities=9%  Similarity=-0.016  Sum_probs=99.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccH
Q 040580          156 ISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKF  235 (412)
Q Consensus       156 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  235 (412)
                      |.+-....+|.+|+.+++.++.+..  -..-|..+...|+..|+++.|+++|-+.         ..++-.|.+|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            4445566777777777777766533  2334666667777777777777777442         2345567777777777


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          236 FMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       236 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      ++|.++-.+...  +......|-+-..-+-++|++.+|.+++-...    .|+.     .|..|-+.|..+..+++..+-
T Consensus       808 ~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHh
Confidence            777777665422  22223455555555666677777766654433    3442     355666777777666665542


Q ss_pred             HhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          316 KHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       316 ~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      .-   ..-..|-..+..-|-..|+...|++-|-+.
T Consensus       877 h~---d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  877 HG---DHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             Ch---hhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            11   111234444555555566666666655444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.54  E-value=0.00015  Score=70.31  Aligned_cols=228  Identities=13%  Similarity=0.035  Sum_probs=123.4

Q ss_pred             ccccccccCCCChHHHHHHHHHhh-ccChh-----hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH
Q 040580           17 FNVPSHQTHPKNGDLARKIIRYRK-QEGFV-----DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYA   90 (412)
Q Consensus        17 ~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~   90 (412)
                      ...+.++...+-..+-.++++++. +++++     .-|.+|-...+. +..+..+..+++.... .|+.      ...+.
T Consensus       988 S~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~~i------a~iai 1059 (1666)
T KOG0985|consen  988 SVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-APDI------AEIAI 1059 (1666)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-chhH------HHHHh
Confidence            344556666777777788888765 23222     234444333333 3345555555554332 1221      11222


Q ss_pred             hcCChHHHHHHHHHHHhCC---------------------CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCH
Q 040580           91 NNGFVLEAQVVWEELLSSS---------------------FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLP  149 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~---------------------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  149 (412)
                      ..+-+++|..+|+..-..+                     -.-...+|+.+..+-.+.|.+.+|.+-|-+.      -||
T Consensus      1060 ~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDp 1133 (1666)
T KOG0985|consen 1060 ENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDP 1133 (1666)
T ss_pred             hhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCc
Confidence            3333333333333211000                     0113456777777777777777776666443      245


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 040580          150 EVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTY  229 (412)
Q Consensus       150 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  229 (412)
                      ..|.-++....+.|.|++-.+.+.-.++..-.|...+  .||-+|++.+++.+.+.+.       ..|+......+-+-|
T Consensus      1134 s~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrc 1204 (1666)
T KOG0985|consen 1134 SNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRC 1204 (1666)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHH
Confidence            6777777777788888777777766666655554433  5777777777776655544       125555555555555


Q ss_pred             HhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHH
Q 040580          230 LKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQRE  276 (412)
Q Consensus       230 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  276 (412)
                      ...+.++.|.-++..+         .-|.-|...+...|++..|...
T Consensus      1205 f~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~ 1242 (1666)
T KOG0985|consen 1205 FEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDA 1242 (1666)
T ss_pred             hhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHH
Confidence            5666666555555532         4455555555555555555443

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

Probab=98.53  E-value=4.8e-05  Score=71.23  Aligned_cols=217  Identities=13%  Similarity=0.050  Sum_probs=158.8

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..-..+...+...|-...|..+|+++.         .|.-.|.+|...|+..+|..+..+-.+  -+|++..|..+....
T Consensus       399 q~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVL  467 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhc
Confidence            334445666777788888888887765         366778888999999999888887766  368888888888888


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLG  239 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  239 (412)
                      ....-+++|.++++....+       .-..+-....+.++++++.+.|+.-.+.+ +....+|-.+-.+..+.+++..|.
T Consensus       468 ~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHH
Confidence            7777888888888765443       11111111223678888888887766544 335667777777788888888888


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          240 EFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      +.|..-..-.++ +...||.+-.+|.+.|+-.+|...+.+..+.+ .-+-..|...+..-.+.|.+++|.+.+.++.+
T Consensus       540 ~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  540 KAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            888875444443 35889999999999999999999998888766 44455666677777888888888888877754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.52  E-value=2.5e-05  Score=66.53  Aligned_cols=186  Identities=10%  Similarity=-0.057  Sum_probs=122.0

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-H---HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-cC-HHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD-N---STLCALMLCYANNGFVLEAQVVWEELLSSSFV-LS-VQV  116 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~-~~~  116 (412)
                      ....+..+...+...|+++.|...|++.....  |+ .   .++..+..++.+.|++++|...++.+.+.... |. ..+
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            55667778888899999999999999988753  33 2   46677888899999999999999999875411 11 124


Q ss_pred             HHHHHHHHHcc--------CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHH
Q 040580          117 LSDLMDAYGRI--------GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGN  188 (412)
Q Consensus       117 ~~~li~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  188 (412)
                      +..+..++.+.        |+.+.|.+.|+++.... +-++..+..+.....    ...       ..       .....
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~-------~~-------~~~~~  170 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRN-------RL-------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHH-------HH-------HHHHH
Confidence            55566666554        77889999999987654 222223322211100    000       00       00111


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC
Q 040580          189 AFIIYYSRFGSLTEMETAYGRLKRSRH--LIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR  249 (412)
Q Consensus       189 ~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  249 (412)
                      .+...+.+.|++++|...++...+...  +.....+..+..++.+.|++++|...++.+....
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            344567777888888888877776532  2235677777888888888888888777765544

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).

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.51  E-value=0.00089  Score=61.52  Aligned_cols=346  Identities=10%  Similarity=-0.003  Sum_probs=198.2

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC
Q 040580           50 LVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC  129 (412)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  129 (412)
                      =++.+...+++++|.+..+++...+ +-+...+..-+-+..+.+++++|+.+.+.=..  +..+..-+---..+.-+.+.
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHccc
Confidence            3566778899999999999999865 44566677777788999999999854432211  11111111112233447899


Q ss_pred             HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-------------------------C--
Q 040580          130 FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS-------------------------V--  182 (412)
Q Consensus       130 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-------------------------p--  182 (412)
                      .|+|+..++-..    +.++.+...-.+.+.+.|++++|+++|..+.+.+..                         |  
T Consensus        95 ~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v  170 (652)
T KOG2376|consen   95 LDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEV  170 (652)
T ss_pred             HHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCC
Confidence            999999988331    222336666677888999999999999998554311                         1  


Q ss_pred             ChHHHHHHHH---HHHhcCCHHHHHHHHHHHHhCC-------CCCCHH-------HHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          183 DSATGNAFII---YYSRFGSLTEMETAYGRLKRSR-------HLIDKE-------GIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       183 ~~~~~~~li~---~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~-------~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      ...+|..+.+   .+...|++.+|+++++...+.+       -.-+..       .--.+.-.+...|+.++|..++..+
T Consensus       171 ~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~  250 (652)
T KOG2376|consen  171 PEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI  250 (652)
T ss_pred             CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            1224444433   3456899999999998883211       111111       2233445566789999999988775


Q ss_pred             hcCC-CCc--chHHHHHHHHHHhcCC---------------------------------------------ChHHHHHHH
Q 040580          246 GLGR-KDL--GNLLWNLLLLSYAGNF---------------------------------------------KMKSLQREF  277 (412)
Q Consensus       246 ~~~~-~~~--~~~~~~~li~~~~~~g---------------------------------------------~~~~a~~~~  277 (412)
                      -... .+.  -...-|.|+..-....                                             ..+.+.++.
T Consensus       251 i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~  330 (652)
T KOG2376|consen  251 IKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELS  330 (652)
T ss_pred             HHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            2222 111  0112222221111100                                             001111100


Q ss_pred             HHHHHcCCCCcHhHHHHHHHHHHcc--CChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHH-------
Q 040580          278 MRMSEAGFHPDLTTFNIRAVAFSRM--SMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLS-------  348 (412)
Q Consensus       278 ~~m~~~~~~p~~~~~~~ll~~~~~~--g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~-------  348 (412)
                      ..  ..+..|. ..+.+++..+.+.  ....++.+++...-+....-+....-.++......|+++.|.+++.       
T Consensus       331 a~--lp~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~  407 (652)
T KOG2376|consen  331 AS--LPGMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWK  407 (652)
T ss_pred             Hh--CCccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhh
Confidence            00  0122333 3455555554432  2466788887776554322234555666777778999999999998       


Q ss_pred             -hc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc------Cc----hHHHHHHHHHHHHcCccccc
Q 040580          349 -KM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR------QR----KWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       349 -~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~------~~----~~~~~~l~~~~~~~g~~~~a  407 (412)
                       .+ ..+..|..+.  .+...+.+ ++..-|..++.+-..      +.    ..++.-+...-.+.|.-++|
T Consensus       408 ss~~~~~~~P~~V~--aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea  477 (652)
T KOG2376|consen  408 SSILEAKHLPGTVG--AIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEA  477 (652)
T ss_pred             hhhhhhccChhHHH--HHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHH
Confidence             65 5566666554  34555555 666667777765332      11    23333344444456666655

>PLN02789 farnesyltranstransferase

Probab=98.50  E-value=0.00033  Score=61.84  Aligned_cols=119  Identities=8%  Similarity=-0.051  Sum_probs=49.9

Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC--hHHHH
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG-CFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ--LELME  169 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~--~~~a~  169 (412)
                      ++.++|+.+++++++.. +-+..+|+..-.++.+.| ++++++..++++.+.+ +-+..+|+..-..+.+.|.  .++++
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el  128 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKEL  128 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHH
Confidence            34444444444444432 222334444333444444 3445555555444333 2222344433323333332  13444


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          170 NTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       170 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      .+++++.+...+ +..+|+....++.+.|+++++.+.++++.+.+
T Consensus       129 ~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d  172 (320)
T PLN02789        129 EFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED  172 (320)
T ss_pred             HHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC
Confidence            444444443221 34444444444444455555555555554443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.49  E-value=6.4e-05  Score=70.47  Aligned_cols=172  Identities=13%  Similarity=0.124  Sum_probs=122.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCC
Q 040580          190 FIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFK  269 (412)
Q Consensus       190 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  269 (412)
                      .+.+......|.+|..+++.+...+.  ...-|..+.+.|+..|+++.|+++|-+.         ..++-.|..|.++|+
T Consensus       738 aieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhcccc
Confidence            44555667889999999998887643  3345777888999999999999999864         567788999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHh
Q 040580          270 MKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSK  349 (412)
Q Consensus       270 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  349 (412)
                      ++.|.++-.+..  |-......|-.-..-+-+.|++.+|.++|-..-    .|+.     .|..|-+.|..+.+.++.++
T Consensus       807 w~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  807 WEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHH
Confidence            999988766544  323344556666666778899988888775431    3543     46789999999999888877


Q ss_pred             ccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc
Q 040580          350 MNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR  385 (412)
Q Consensus       350 m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~  385 (412)
                      -.-..  -..|...+-.-|.. |+...|.+.|.+...
T Consensus       876 ~h~d~--l~dt~~~f~~e~e~~g~lkaae~~flea~d  910 (1636)
T KOG3616|consen  876 HHGDH--LHDTHKHFAKELEAEGDLKAAEEHFLEAGD  910 (1636)
T ss_pred             hChhh--hhHHHHHHHHHHHhccChhHHHHHHHhhhh
Confidence            62111  11233344445644 999999988877543

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

Probab=98.48  E-value=4.7e-05  Score=62.73  Aligned_cols=126  Identities=19%  Similarity=0.061  Sum_probs=60.0

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ...+..+....+.|++..|...+.+..... ++|..+|+.+.-+|.+.|+++.|..-|.+..+-. +-+|...|.+.-.+
T Consensus       101 ~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~  178 (257)
T COG5010         101 ELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSL  178 (257)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHH
Confidence            334444445555555555555555554433 4455555555555555555555555555444332 23334445554445


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYG  208 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  208 (412)
                      .-.|+.+.|..++......+.. |...-..+.......|++++|+.+..
T Consensus       179 ~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         179 LLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             HHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhcc
Confidence            5555555555555554443222 33333444444445555555554443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.45  E-value=0.0016  Score=61.84  Aligned_cols=360  Identities=11%  Similarity=-0.048  Sum_probs=188.7

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCcCHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS-FVLSVQVLSDLM  121 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li  121 (412)
                      |...|..+--++...|+++.+.+.|++.... ..-..+.|+.+-..+...|.-..|..+.+.-.... -++|...+-..-
T Consensus       322 d~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmas  400 (799)
T KOG4162|consen  322 DAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMAS  400 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHH
Confidence            6666777777777788888888888776543 23356667777777777777667777666654432 122333333333


Q ss_pred             HHHHc-cCCHHHHHHHHHHHhhc----CCCCCHHhHHHHHHHHHhc-----------CChHHHHHHHHHHHHCCC-CCCh
Q 040580          122 DAYGR-IGCFNEIISIIDQVSCR----NADLLPEVYSRAISCFGKQ-----------GQLELMENTLKEMVSRGF-SVDS  184 (412)
Q Consensus       122 ~~~~~-~~~~~~a~~~~~~m~~~----~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~g~-~p~~  184 (412)
                      ..|.+ .+.+++++.+-.+....    .-...+..|-.+--+|...           ....++++.+++..+.+. .|+.
T Consensus       401 klc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~~  480 (799)
T KOG4162|consen  401 KLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPLV  480 (799)
T ss_pred             HHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCchH
Confidence            33433 24455554444443321    0112233444433333211           124455566665555322 2222


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-CCCc-----------
Q 040580          185 ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG-RKDL-----------  252 (412)
Q Consensus       185 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~-----------  252 (412)
                      ..|  +---|+..++++.|.+..++..+.+-.-+...|..|.-.+...+++.+|+.+.+..-.. +.+.           
T Consensus       481 if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~  558 (799)
T KOG4162|consen  481 IFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIEL  558 (799)
T ss_pred             HHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhh
Confidence            222  22234455566666666666666544555566666665666666666665555432111 1100           


Q ss_pred             -------chHHHHHHHHHHh-----------------------cCCChHHHHHHHHHH-----------------HHcCC
Q 040580          253 -------GNLLWNLLLLSYA-----------------------GNFKMKSLQREFMRM-----------------SEAGF  285 (412)
Q Consensus       253 -------~~~~~~~li~~~~-----------------------~~g~~~~a~~~~~~m-----------------~~~~~  285 (412)
                             -..|...++...-                       ...+..++....+.+                 ....+
T Consensus       559 ~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~  638 (799)
T KOG4162|consen  559 TFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTV  638 (799)
T ss_pred             hcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccc
Confidence                   0011111111110                       000111111111110                 00011


Q ss_pred             CCcH--------hHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCC
Q 040580          286 HPDL--------TTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSP  356 (412)
Q Consensus       286 ~p~~--------~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p  356 (412)
                      .|..        ..|......+.+.++.++|...+.+..+.- .-.+..|...-..+...|..++|.+.|... ..++ -
T Consensus       639 ~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP-~  716 (799)
T KOG4162|consen  639 LPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDP-D  716 (799)
T ss_pred             cCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCC-C
Confidence            1221        123345556778888888887777654422 225556665556667788889999988776 3222 1


Q ss_pred             CcccHHHHHHHHhc-CCcccHHH--HHHHhc---cCchHHHHHHHHHHHHcCccccc
Q 040580          357 VVSTDPYVFEAFGK-GDFHSSSE--AFLEFK---RQRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       357 ~~~~~~~li~~~~~-~~~~~a~~--~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      .+.....+-..+.+ |+..-|..  ++.++.   +.+...|-.++.++-+.|+.++|
T Consensus       717 hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~A  773 (799)
T KOG4162|consen  717 HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQA  773 (799)
T ss_pred             CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHH
Confidence            23334556666666 76666666  666544   47899999999999999999887

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.45  E-value=2e-05  Score=61.10  Aligned_cols=108  Identities=6%  Similarity=-0.224  Sum_probs=61.6

Q ss_pred             HHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC
Q 040580           34 KIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS  113 (412)
Q Consensus        34 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~  113 (412)
                      ..+++..+.++..+......+...|++++|...|+...... +.+...|..+..++.+.|++++|...|+...+.+ +.+
T Consensus        14 ~~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~   91 (144)
T PRK15359         14 DILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASH   91 (144)
T ss_pred             HHHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCC
Confidence            33444444444444445555566666666666666665542 2345555666666666666666666666666543 445


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      ...+..+..++.+.|+.++|...|+.....
T Consensus        92 ~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         92 PEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            566666666666666666666666665543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.44  E-value=6.4e-05  Score=68.54  Aligned_cols=217  Identities=10%  Similarity=0.038  Sum_probs=143.9

Q ss_pred             ccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHH
Q 040580           21 SHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLE   97 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~   97 (412)
                      .-+.+.|++.+|.-.|+...+.   +...|-.|....+.+++-..|+..+.+..+.. +-|....-.|.-.|...|.-..
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            3456778888888888776654   55667777778888888888888888877753 2256667777777888887777


Q ss_pred             HHHHHHHHHhCCCCc--------CHHHHHHHHHHHHccCCHHHHHHHHHHHhhc-CCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           98 AQVVWEELLSSSFVL--------SVQVLSDLMDAYGRIGCFNEIISIIDQVSCR-NADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        98 a~~~~~~m~~~~~~~--------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      |...++.-++...+-        +...-+.  ..+.....+....++|-++... +..+||++...|--.|.-.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            877777665432110        0000000  1222333445556666655433 3347788888888888888888888


Q ss_pred             HHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcccHHHHHHHHHH
Q 040580          169 ENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLID-KEGIRAVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       169 ~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~  244 (412)
                      .+.|+.....  +| |...||.|-..++...+..+|...|++.++.  +|+ +.+...|.-.|...|.+++|.+.|-.
T Consensus       450 iDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  450 VDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            8888888774  55 5677888888888888888888888887764  343 34455556667777777776665543

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

Probab=98.44  E-value=4.9e-05  Score=62.37  Aligned_cols=120  Identities=10%  Similarity=-0.001  Sum_probs=78.2

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH-HccCC--HHH
Q 040580           56 RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAY-GRIGC--FNE  132 (412)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-~~~~~--~~~  132 (412)
                      ..++.+++...++...+.. +.|...|..+...|...|++++|...|+...+.. +.+...+..+..++ ...|+  .++
T Consensus        51 ~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         51 SQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             CchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            4455566666666655543 4466667777777777777777777777777654 44566666666653 55555  367


Q ss_pred             HHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          133 IISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       133 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      |.+++++..+.+ +-++.++..+...+.+.|++++|+..|+++.+.
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            777777776655 445566777777777777777777777777665

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

Probab=98.43  E-value=7.9e-05  Score=61.41  Aligned_cols=157  Identities=11%  Similarity=0.030  Sum_probs=92.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 040580          118 SDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRF  197 (412)
Q Consensus       118 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  197 (412)
                      ..+-..+.-.|+-+....+........ +-++...+..+....+.|++..|+..|.+..... ++|...|+.+--+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            445556666666666666666654332 3344455556777777777777777777766542 34667777777777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHH
Q 040580          198 GSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREF  277 (412)
Q Consensus       198 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  277 (412)
                      |+.++|..-|.+..+... -++...+.+.-.|.-.|+++.|..++......+.. |..+-..+.......|++++|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            777777777777665432 23444555555555555666665555554444332 2355555555555566666665544


Q ss_pred             H
Q 040580          278 M  278 (412)
Q Consensus       278 ~  278 (412)
                      .
T Consensus       226 ~  226 (257)
T COG5010         226 V  226 (257)
T ss_pred             c
Confidence            3

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.41  E-value=0.00077  Score=63.84  Aligned_cols=363  Identities=13%  Similarity=0.010  Sum_probs=228.8

Q ss_pred             cccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCC-CHHhHHHHHHHHHh
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLP-DNSTLCALMLCYAN   91 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~   91 (412)
                      +..+.-+....|+++.+.+.|++...-   ....|+.+-..+...|.-..|..+++.-....-.| ++..+-..-..|.+
T Consensus       326 ~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e  405 (799)
T KOG4162|consen  326 FDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMASKLCIE  405 (799)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHHHHHHh
Confidence            444455567888999999999886553   45578888888888888888888887765433224 33444433444443


Q ss_pred             -cCChHHHHHHHHHHHhC--CC--CcCHHHHHHHHHHHHcc-----------CCHHHHHHHHHHHhhcCCCCCHHhHHHH
Q 040580           92 -NGFVLEAQVVWEELLSS--SF--VLSVQVLSDLMDAYGRI-----------GCFNEIISIIDQVSCRNADLLPEVYSRA  155 (412)
Q Consensus        92 -~~~~~~a~~~~~~m~~~--~~--~~~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~l  155 (412)
                       .+.+++++.+-.+....  +.  ......|..+.-+|...           ....++.+.+++..+.+ +-||.+.-.+
T Consensus       406 ~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~dp~~if~l  484 (799)
T KOG4162|consen  406 RLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PTDPLVIFYL  484 (799)
T ss_pred             chhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CCCchHHHHH
Confidence             46677777766666551  11  12233444444444322           22456777888887766 4555544444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CC------------------C
Q 040580          156 ISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS-RH------------------L  216 (412)
Q Consensus       156 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~------------------~  216 (412)
                      ---|+..++++.|++..++..+-+-.-+...|..+.-.+...+++.+|+.+.+..... |.                  .
T Consensus       485 alq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~~~~~e  564 (799)
T KOG4162|consen  485 ALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELTFNDRE  564 (799)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhhcccHH
Confidence            4456777888888888888888766667778888887888888888888887665432 11                  0


Q ss_pred             CCHHHHHHHHHHHHhc-----------------------ccHHHHHHHHHH-----------Hh----cC----CCCcc-
Q 040580          217 IDKEGIRAVSFTYLKE-----------------------RKFFMLGEFLRD-----------VG----LG----RKDLG-  253 (412)
Q Consensus       217 ~~~~~~~~li~~~~~~-----------------------~~~~~a~~~~~~-----------~~----~~----~~~~~-  253 (412)
                      ....|...++..+-+.                       ++..++.+..+.           +.    .+    .+.++ 
T Consensus       565 ~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~  644 (799)
T KOG4162|consen  565 EALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDS  644 (799)
T ss_pred             HHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCc
Confidence            0111222222222200                       011111111000           00    01    11122 


Q ss_pred             -----hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-HhhH
Q 040580          254 -----NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPD-LVTY  327 (412)
Q Consensus       254 -----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~  327 (412)
                           ...|......+.+.+..++|...+.+....- .-....|...-..+...|+.++|.+.|.....  +.|+ ....
T Consensus       645 ~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~  721 (799)
T KOG4162|consen  645 LWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSM  721 (799)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHH
Confidence                 2456677788889999999998888877532 33456676666778889999999999988765  5564 5677


Q ss_pred             HHHHHHHHhccccchHHH--HHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHh
Q 040580          328 GCVVDAYLDKRLGRNLDF--GLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEF  383 (412)
Q Consensus       328 ~~li~~~~~~~~~~~a~~--~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~  383 (412)
                      .++...+.+.|+...+..  ++..+ +.++ -+...|-.+-..+.+ |+.++|.+-|..-
T Consensus       722 ~Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa  780 (799)
T KOG4162|consen  722 TALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQAA  780 (799)
T ss_pred             HHHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence            888899999998888888  77777 4443 345556666667766 9999999888753

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.40  E-value=4.6e-07  Score=51.18  Aligned_cols=33  Identities=24%  Similarity=0.349  Sum_probs=24.4

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD  288 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  288 (412)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.38  E-value=6.6e-07  Score=50.53  Aligned_cols=33  Identities=33%  Similarity=0.507  Sum_probs=22.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVD  183 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  183 (412)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566677777777777777777777776666665

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.35  E-value=8e-07  Score=49.80  Aligned_cols=33  Identities=27%  Similarity=0.288  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP  287 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  287 (412)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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            355666666666666666666666666655555

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

Probab=98.35  E-value=3.4e-05  Score=59.25  Aligned_cols=97  Identities=16%  Similarity=0.136  Sum_probs=59.1

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      .....+...+...|++++|.+.++.+...+ +.+...+..+..++.+.|++++|...+++....+ +.++..+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            334445555666666666666666666544 4455666666666666666666666666665443 34455566666666


Q ss_pred             HhcCChHHHHHHHHHHHHC
Q 040580          160 GKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~  178 (412)
                      ...|++++|...|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666553

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

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.34  E-value=0.0018  Score=63.36  Aligned_cols=60  Identities=13%  Similarity=0.172  Sum_probs=30.4

Q ss_pred             cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           42 EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLL--PDNSTLCALMLCYANNGFVLEAQVVWEELL  106 (412)
Q Consensus        42 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  106 (412)
                      .|...|+.++.-   .+  .--.+++++..+.+++  .|++.....+.++...+-+.+-.++++.+.
T Consensus       950 ~D~~LW~~VL~e---~n--~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIv 1011 (1666)
T KOG0985|consen  950 SDPDLWAKVLNE---EN--PYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIV 1011 (1666)
T ss_pred             cChHHHHHHHhc---cC--hHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence            366666655531   11  1123444555444432  244555555666666666666666666654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.33  E-value=0.00055  Score=66.84  Aligned_cols=183  Identities=9%  Similarity=-0.034  Sum_probs=132.5

Q ss_pred             CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH
Q 040580           75 LLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR  154 (412)
Q Consensus        75 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  154 (412)
                      ...+...+-.|.....+.|..++|..+++...+.. +-+......+...+.+.+++++|+..+++....+ +-++.....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            45568888888899999999999999999998864 4456778888899999999999999999998765 556678888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc
Q 040580          155 AISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK  234 (412)
Q Consensus       155 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  234 (412)
                      +..++.+.|++++|..+|++....+. -+..++..+-.++-..|+.++|...|+...+..- +....|+.++      ++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~-~~~~~~~~~~------~~  231 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG-DGARKLTRRL------VD  231 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC-cchHHHHHHH------HH
Confidence            88889999999999999999988432 2467788888888999999999999998876532 2334444333      23


Q ss_pred             HHHHHHHHHHHhcCC----CCcchHHHHHHHHHHhcC
Q 040580          235 FFMLGEFLRDVGLGR----KDLGNLLWNLLLLSYAGN  267 (412)
Q Consensus       235 ~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~  267 (412)
                      +..-..++++++...    .+....+...+|.-|.+.
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (694)
T PRK15179        232 LNADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGRR  268 (694)
T ss_pred             HHHHHHHHHHcCcccccCCCceeeeeHHHHHHHHhhc
Confidence            334444555543322    222234455555555543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.33  E-value=9.4e-07  Score=49.50  Aligned_cols=33  Identities=24%  Similarity=0.422  Sum_probs=20.6

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCC
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLP   77 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p   77 (412)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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            356666666666666666666666666666655

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.31  E-value=0.0021  Score=58.53  Aligned_cols=355  Identities=12%  Similarity=0.027  Sum_probs=215.3

Q ss_pred             cccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-HHhHHHHHHHHHhcCChHH
Q 040580           22 HQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD-NSTLCALMLCYANNGFVLE   97 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~   97 (412)
                      +....|+++.|...|.+...   +|-+.|+.=..+|+..|++++|++=-.+-.+  +.|+ +..|+....++.-.|++++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHH
Confidence            45688999999999987553   4777788888999999999999887666665  4565 6779999999999999999


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHH------HHhhc---CCCCCHHhHHHHHHHHHhc------
Q 040580           98 AQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIID------QVSCR---NADLLPEVYSRAISCFGKQ------  162 (412)
Q Consensus        98 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~------~m~~~---~~~~~~~~~~~li~~~~~~------  162 (412)
                      |..-|.+-++.. +.|...++.+..++.....   +.+.|.      .+...   ........|..++...-+.      
T Consensus        89 A~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~---~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   89 AILAYSEGLEKD-PSNKQLKTGLAQAYLEDYA---ADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHHHhhcC-CchHHHHHhHHHhhhHHHH---hhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            999999998875 6677888888888721110   111111      11000   0000111333333332211      


Q ss_pred             -CChHHHHHHHHHHH--------HCC-------CCC------------C----------hHHHHHHHHHHHhcCCHHHHH
Q 040580          163 -GQLELMENTLKEMV--------SRG-------FSV------------D----------SATGNAFIIYYSRFGSLTEME  204 (412)
Q Consensus       163 -g~~~~a~~~~~~m~--------~~g-------~~p------------~----------~~~~~~li~~~~~~g~~~~a~  204 (412)
                       .+.+......-.+.        ..|       ..|            |          ..-...+.++.-+..+++.+.
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~  244 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAI  244 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHH
Confidence             01111111111110        001       111            0          111445667777778888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc----c--hHHHHHHHHHHhcCCChHHHHHHHH
Q 040580          205 TAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL----G--NLLWNLLLLSYAGNFKMKSLQREFM  278 (412)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~----~--~~~~~~li~~~~~~g~~~~a~~~~~  278 (412)
                      +-+.......  .+..-++....+|...|.+.+....-..-...+...    +  ...+..+..+|.+.++++.|+..|.
T Consensus       245 q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~  322 (539)
T KOG0548|consen  245 QHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQ  322 (539)
T ss_pred             HHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHH
Confidence            8888877665  455566666777777777665554444322222111    0  1122223446677788999999998


Q ss_pred             HHHHcCCCCcHhHHH-------------------------HHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 040580          279 RMSEAGFHPDLTTFN-------------------------IRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDA  333 (412)
Q Consensus       279 ~m~~~~~~p~~~~~~-------------------------~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  333 (412)
                      +.......|+..+=.                         .=...+.+.|++..|...|+++++.. +-|...|..-.-+
T Consensus       323 kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac  401 (539)
T KOG0548|consen  323 KALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAAC  401 (539)
T ss_pred             HHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHH
Confidence            877665566543321                         11224667889999999999998876 3378889888889


Q ss_pred             HHhccccchHHHHHHhc-cCCCCCCc-ccHHHHHHHH-hcCCcccHHHHHHHhccCc
Q 040580          334 YLDKRLGRNLDFGLSKM-NLDDSPVV-STDPYVFEAF-GKGDFHSSSEAFLEFKRQR  387 (412)
Q Consensus       334 ~~~~~~~~~a~~~~~~m-~~~~~p~~-~~~~~li~~~-~~~~~~~a~~~~~~~~~~~  387 (412)
                      |.+.|.+..+.+=.+.. ..  .|+. .-|..=-.++ .-.++++|.+.|.+-...|
T Consensus       402 ~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  402 YLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            99999888887766555 33  2321 1121111111 1267777777777765543

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

Probab=98.30  E-value=0.00078  Score=66.71  Aligned_cols=146  Identities=9%  Similarity=0.068  Sum_probs=70.9

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNS-TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM  121 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  121 (412)
                      +...|..|+..+...+++++|.++.+...+.  .|+.. .|-.+...+.+.++...+..+  .               ++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~---------------~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--N---------------LI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--h---------------hh
Confidence            4556667777777777777777777755543  34432 233333344555554444433  2               22


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHH
Q 040580          122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLT  201 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  201 (412)
                      .......++.-+..+.+.|.+  ..-+...+-.+..+|-+.|+.+++..+|+++.+... -|....|.+...++.. +++
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~--~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~-~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILL--YGENKLALRTLAEAYAKLNENKKLKGVWERLVKADR-DNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhcccccchhHHHHHHHHHHh--hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHh-hHH
Confidence            222222223222222223322  112223444555555555556666666655555431 1445555555555555 555


Q ss_pred             HHHHHHHHHH
Q 040580          202 EMETAYGRLK  211 (412)
Q Consensus       202 ~a~~~~~~~~  211 (412)
                      +|..++....
T Consensus       167 KA~~m~~KAV  176 (906)
T PRK14720        167 KAITYLKKAI  176 (906)
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.26  E-value=1.4e-05  Score=56.70  Aligned_cols=79  Identities=11%  Similarity=0.196  Sum_probs=58.1

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCC-CCCHHhHHHHHHHHHhcC--------ChHHHHHHHHHHHhCCCCcCHHHHH
Q 040580           48 ASLVEDLGRKKKPHLAHQLVNTVKSEGL-LPDNSTLCALMLCYANNG--------FVLEAQVVWEELLSSSFVLSVQVLS  118 (412)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~~~~~~~~~~~  118 (412)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +....+.+|+.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            4455566666888888888888888888 788888888888776643        2445667777777777788888888


Q ss_pred             HHHHHHHc
Q 040580          119 DLMDAYGR  126 (412)
Q Consensus       119 ~li~~~~~  126 (412)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            77776654

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 [, , ].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.26  E-value=0.00036  Score=68.11  Aligned_cols=179  Identities=9%  Similarity=0.042  Sum_probs=137.6

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD-NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM  121 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  121 (412)
                      ++..+-.|.....+.|..++|..+++...+.  .|+ ......+...+.+.+++++|...+++..... +-+....+.+.
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            5667888888889999999999999999985  566 4557778899999999999999999999876 56778889999


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHH
Q 040580          122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLT  201 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  201 (412)
                      .++.+.|++++|..+|++....+ +-++.++..+-..+...|+.++|...|++..+. ..|....|+..+.-      +.
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~~~------~~  233 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRLVD------LN  233 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHHHH------HH
Confidence            99999999999999999998743 445679999999999999999999999998775 23455566655432      33


Q ss_pred             HHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhc
Q 040580          202 EMETAYGRLKRSR----HLIDKEGIRAVSFTYLKE  232 (412)
Q Consensus       202 ~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~  232 (412)
                      .-...++.+.-.+    ......+....|.-|.+.
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (694)
T PRK15179        234 ADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGRR  268 (694)
T ss_pred             HHHHHHHHcCcccccCCCceeeeeHHHHHHHHhhc
Confidence            3444555554333    233344455555555554

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

Probab=98.25  E-value=0.001  Score=65.98  Aligned_cols=236  Identities=11%  Similarity=0.040  Sum_probs=142.7

Q ss_pred             hhhccccccccccCCCChHHHHHHHHHhhc--cChh-hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHH
Q 040580           12 FKFKRFNVPSHQTHPKNGDLARKIIRYRKQ--EGFV-DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLC   88 (412)
Q Consensus        12 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~   88 (412)
                      ....+..|+..|...+++++|.++.+...+  |+.. .|-.+...+.+.++..++..+                 .++..
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~~   92 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-----------------NLIDS   92 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-----------------hhhhh
Confidence            345567888999999999999999987654  3332 333333355566665555444                 23444


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      .....++..+..++..|...  .-+...+..+..+|-+.|+.++|..+++++.+.+ +-++.+.|.+.-.|... ++++|
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             cccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHH
Confidence            44555555555556666653  3445577778888888888888888888888776 56677888888888877 88888


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC
Q 040580          169 ENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG  248 (412)
Q Consensus       169 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  248 (412)
                      ++++.+....               +...+++..+..+|..+...... +...+-.+.......-.+..           
T Consensus       169 ~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~~ki~~~~~~~~-----------  221 (906)
T PRK14720        169 ITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIERKVLGHREFTR-----------  221 (906)
T ss_pred             HHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHHHHHHhhhccch-----------
Confidence            8877776654               55555666777777766654321 11111111111111100111           


Q ss_pred             CCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH
Q 040580          249 RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFS  300 (412)
Q Consensus       249 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  300 (412)
                          -..++-.+-..|-..++++++..+++...+.. +-|.....-++..|.
T Consensus       222 ----~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        222 ----LVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             ----hHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence                12445555556666677777777777776543 224445555555554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.25  E-value=0.0024  Score=54.99  Aligned_cols=292  Identities=12%  Similarity=0.028  Sum_probs=198.1

Q ss_pred             cccccccCCCChHHHHHHHHHhhccChhhHHHHHH---HHhcCCChhHHHHHHHHHHhcCCCCCHHhHH-HHHHHHHhcC
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVE---DLGRKKKPHLAHQLVNTVKSEGLLPDNSTLC-ALMLCYANNG   93 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~---~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~~   93 (412)
                      .+...+.-.|++.+|+.-+....+-|+..|-++.+   .|...|+-.-|+.=|.+..+.  +||-..-. .-...+.++|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcc
Confidence            34455666788888888888888878877777654   667788888888888888874  77754322 2334577899


Q ss_pred             ChHHHHHHHHHHHhCCCCc--CHH------------HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           94 FVLEAQVVWEELLSSSFVL--SVQ------------VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~--~~~------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      .++.|..=|+.+++.....  +..            .....+..+.-.|+...|++....+.+-. +.+...|..-..+|
T Consensus       121 ele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~  199 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCY  199 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHH
Confidence            9999999999999864211  111            12234455667789999999998887765 56777888888999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----------
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTY----------  229 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----------  229 (412)
                      ...|++..|+.=++...+..-. +..++--+-..+...|+.+.++...++..+.  .||....-..-.-+          
T Consensus       200 i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~  276 (504)
T KOG0624|consen  200 IAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESA  276 (504)
T ss_pred             HhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHH
Confidence            9999999998777666553222 4455555667777889999888888888765  35544322222211          


Q ss_pred             ---HhcccHHHHHHHHHHHhcCCCCcch---HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHcc
Q 040580          230 ---LKERKFFMLGEFLRDVGLGRKDLGN---LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRM  302 (412)
Q Consensus       230 ---~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~  302 (412)
                         ...+++-++.+-.+..-...+....   ..+..+-.++...|++.+|++.-.+..+.  .|| +.++---..+|.-.
T Consensus       277 e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dRAeA~l~d  354 (504)
T KOG0624|consen  277 EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDRAEAYLGD  354 (504)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHHHHHHhhh
Confidence               2234444444444443333333112   33445566777789999999988888754  565 77777777888888


Q ss_pred             CChhHHHHHHHHHHh
Q 040580          303 SMFWDLHLSLEHMKH  317 (412)
Q Consensus       303 g~~~~a~~~~~~m~~  317 (412)
                      ..++.|+.-|+...+
T Consensus       355 E~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  355 EMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            888888887777655

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.25  E-value=2.2e-05  Score=70.95  Aligned_cols=120  Identities=10%  Similarity=-0.031  Sum_probs=81.3

Q ss_pred             CHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC--cchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          218 DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD--LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       218 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                      +......+++.+....+++++..++.+.+..+..  .-..|..++|..|.+.|..++++.+++.=...|+-||..||+.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            4444444444444444555555555544333221  11245568888888888888888888888888888888888888


Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 040580          296 AVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDK  337 (412)
Q Consensus       296 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  337 (412)
                      |+.+.+.|++..|.++..+|..++.-.+..|+..-+.+|.+-
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888888887776666667776666666654

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=98.23  E-value=2.8e-05  Score=55.26  Aligned_cols=82  Identities=13%  Similarity=0.171  Sum_probs=67.5

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCC-CCcHhHHHHHHHHHHccCC--------hhHHHHHHHHHHhCCCCCCHhh
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGF-HPDLTTFNIRAVAFSRMSM--------FWDLHLSLEHMKHESVGPDLVT  326 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~g~--------~~~a~~~~~~m~~~g~~p~~~~  326 (412)
                      +-...|..+...+++.....+|+.++..|+ .|+..+|+.++.+.+++.-        +-+.+.+|+.|...+++|+..|
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            334556666667999999999999999999 8999999999999887543        3456778899999999999999


Q ss_pred             HHHHHHHHHhc
Q 040580          327 YGCVVDAYLDK  337 (412)
Q Consensus       327 ~~~li~~~~~~  337 (412)
                      |+.++..+.+.
T Consensus       107 Ynivl~~Llkg  117 (120)
T PF08579_consen  107 YNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHh
Confidence            99999887653

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 [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.22  E-value=3.1e-05  Score=70.10  Aligned_cols=121  Identities=12%  Similarity=0.015  Sum_probs=61.1

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHH
Q 040580           76 LPDNSTLCALMLCYANNGFVLEAQVVWEELLSS--SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYS  153 (412)
Q Consensus        76 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  153 (412)
                      +.+.....++++.+....+++.+..++-.....  ....-..|.+++++.|.+.|..+.++.+++.=...|+.||..++|
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            344445555555555555555555555444432  111112233455555555555555555555555555555555555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 040580          154 RAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSR  196 (412)
Q Consensus       154 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  196 (412)
                      .||..+.+.|++..|.++..+|...+...+..|+...+.+|.+
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            5555555555555555555555554444444444444444443

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 [].

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

Probab=98.20  E-value=0.00014  Score=55.88  Aligned_cols=111  Identities=9%  Similarity=0.019  Sum_probs=87.3

Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGF  180 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  180 (412)
                      .++...... +.+......+...+...|++++|.+.|+.....+ +.++..+..+...+...|++++|...+++..+.+.
T Consensus         5 ~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p   82 (135)
T TIGR02552         5 TLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP   82 (135)
T ss_pred             hHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            455555543 3345667778888889999999999999987765 56777888899999999999999999998877642


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          181 SVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       181 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                       .+...+..+...+...|+++.|...|+...+..
T Consensus        83 -~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        83 -DDPRPYFHAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence             245666777788889999999999998888754

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

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.19  E-value=0.0015  Score=58.82  Aligned_cols=114  Identities=15%  Similarity=0.028  Sum_probs=59.3

Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      ..|++++|+..++.+++.- +-|...+......+.+.++.++|.+.++.+.... +-.+...-.+..++.+.|++.+|+.
T Consensus       318 ~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHHH
Confidence            4555555555555555442 3344444555555555555555555555554432 1223344455555555555555555


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Q 040580          171 TLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAY  207 (412)
Q Consensus       171 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  207 (412)
                      +++....... -|...|..|..+|...|+..++....
T Consensus       396 ~L~~~~~~~p-~dp~~w~~LAqay~~~g~~~~a~~A~  431 (484)
T COG4783         396 ILNRYLFNDP-EDPNGWDLLAQAYAELGNRAEALLAR  431 (484)
T ss_pred             HHHHHhhcCC-CCchHHHHHHHHHHHhCchHHHHHHH
Confidence            5555554421 24555555555555555555544443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.19  E-value=0.00089  Score=63.92  Aligned_cols=320  Identities=8%  Similarity=-0.077  Sum_probs=202.4

Q ss_pred             ChhhHHHHHH--HHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC-C--------CC
Q 040580           43 GFVDCASLVE--DLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSS-S--------FV  111 (412)
Q Consensus        43 ~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~--------~~  111 (412)
                      |..|-.++++  .|...|+.+.|.+-++..+      +...|..+.+.|.+..+++-|.-.+..|... |        ..
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            7777777776  4677899999998887765      4578999999999998888887766666531 1        12


Q ss_pred             cCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHH
Q 040580          112 LSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFI  191 (412)
Q Consensus       112 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  191 (412)
                      |+ .+=....-.....|.+++|+.+|++-++.         ..|=..|-..|.|++|.++-+.=-+-.+   ..||-...
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHH
Confidence            22 22222233345779999999999988653         3344456678999999988765333222   23444444


Q ss_pred             HHHHhcCCHHHHHHHHHHH-----------HhC--------CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc
Q 040580          192 IYYSRFGSLTEMETAYGRL-----------KRS--------RHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL  252 (412)
Q Consensus       192 ~~~~~~g~~~~a~~~~~~~-----------~~~--------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  252 (412)
                      .-+-..++.+.|.+.|+..           .+.        .-..|...|..-...+-..|+.|.|..+++..       
T Consensus       866 ~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A-------  938 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSA-------  938 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHh-------
Confidence            5555566677776666542           111        01234555666666666778888888888854       


Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh----------CCCCC
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH----------ESVGP  322 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----------~g~~p  322 (412)
                        .-|-+++...|-.|+.++|-++-++      .-|....-.|.+.|.+.|++.+|..+|.+...          +++  
T Consensus       939 --~D~fs~VrI~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~-- 1008 (1416)
T KOG3617|consen  939 --KDYFSMVRIKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDM-- 1008 (1416)
T ss_pred             --hhhhhheeeEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCH--
Confidence              5677888888999999999887665      33555666789999999999999999877542          222  


Q ss_pred             CHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHh-------------cc-Cc
Q 040580          323 DLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEF-------------KR-QR  387 (412)
Q Consensus       323 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~-------------~~-~~  387 (412)
                      +...+|.-  ......+.-.|.++|++..-.       +...+..|-+ |.+.+|.++-.+-             .+ .|
T Consensus      1009 ~d~L~nla--l~s~~~d~v~aArYyEe~g~~-------~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sD 1079 (1416)
T KOG3617|consen 1009 KDRLANLA--LMSGGSDLVSAARYYEELGGY-------AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSD 1079 (1416)
T ss_pred             HHHHHHHH--hhcCchhHHHHHHHHHHcchh-------hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCC
Confidence            12222211  122233444555666665211       1122233434 6666665544331             11 56


Q ss_pred             hHHHHHHHHHHHHcCccccc
Q 040580          388 KWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~~a  407 (412)
                      +...+-..+-|+....+++|
T Consensus      1080 p~ll~RcadFF~~~~qyekA 1099 (1416)
T KOG3617|consen 1080 PKLLRRCADFFENNQQYEKA 1099 (1416)
T ss_pred             HHHHHHHHHHHHhHHHHHHH
Confidence            77777777777777777766

>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=98.18  E-value=7.5e-05  Score=67.31  Aligned_cols=122  Identities=17%  Similarity=0.072  Sum_probs=69.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ  162 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  162 (412)
                      ..|+..+...++++.|..+++++.+..  |++  ...+++.+...++-.+|.+++++..... +-+......-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            344455555566666666666666543  332  2335555555566666666666655432 33444555555556666


Q ss_pred             CChHHHHHHHHHHHHCCCCCCh-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          163 GQLELMENTLKEMVSRGFSVDS-ATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       163 g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      ++++.|+.+.+++.+.  .|+. .+|..|..+|.+.|+++.|...++.+.
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            6666666666666653  3433 466666666666666666666666554

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

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.16  E-value=0.0018  Score=58.40  Aligned_cols=117  Identities=12%  Similarity=-0.079  Sum_probs=67.4

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcccHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVD-SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLID-KEGIRAVSFTYLKERKFF  236 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~  236 (412)
                      +...|++++|+..+..+.+.  .|+ ..........+.+.|+.++|.+.++.+....  |+ ....-.+..+|.+.|++.
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChH
Confidence            34556666666666666554  333 3333444455666666666666666666542  33 445555566666666666


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHH
Q 040580          237 MLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRM  280 (412)
Q Consensus       237 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  280 (412)
                      +|..+++......++ |+..|..|..+|...|+..++..-..++
T Consensus       392 eai~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         392 EAIRILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            666666654333332 3466666666666666666666555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.14  E-value=0.00088  Score=65.26  Aligned_cols=168  Identities=12%  Similarity=0.063  Sum_probs=120.4

Q ss_pred             cccCCchhhccccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcC-CCCCHHh
Q 040580            6 LSLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEG-LLPDNST   81 (412)
Q Consensus         6 l~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~   81 (412)
                      +.+..+..|.+..|...|....+...|.+.|+...+-   +..++....+.|++..+++.|..+.-..-+.. ...-...
T Consensus       485 lrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~n  564 (1238)
T KOG1127|consen  485 LRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKEN  564 (1238)
T ss_pred             HhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhh
Confidence            3455567788888888888888888899999887664   66778889999999999999988833222211 0011122


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH--HHHHH
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR--AISCF  159 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~  159 (412)
                      |....-.+-+.++...+..-|+...+.+ |.|...|..+..+|.++|++..|.++|.+...-  .|+. .|..  ..-.-
T Consensus       565 W~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~e  640 (1238)
T KOG1127|consen  565 WVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVME  640 (1238)
T ss_pred             hhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHH
Confidence            3334444667788888888888888875 668899999999999999999999999988542  2222 3332  23345


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 040580          160 GKQGQLELMENTLKEMVS  177 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~  177 (412)
                      +..|.+.++++.+.....
T Consensus       641 cd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  641 CDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HHhhhHHHHHHHHHHHHH
Confidence            678889999888876643

>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=98.14  E-value=4.9e-05  Score=68.48  Aligned_cols=125  Identities=14%  Similarity=0.116  Sum_probs=103.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      .-..+++.+...++++.|+.+|+++.+..  |+  ....+.+.+...++-.+|.++.++.++.. +.+......-...+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34566777788899999999999999873  55  44457788888888899999999988764 567888888889999


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580          126 RIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      +.++.+.|+++.+++.... +-+-.+|..|..+|.+.|+++.|+..++.+-
T Consensus       246 ~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999997653 3344499999999999999999999998775

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=98.11  E-value=0.0049  Score=53.12  Aligned_cols=176  Identities=7%  Similarity=-0.056  Sum_probs=89.1

Q ss_pred             HHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhH
Q 040580          228 TYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWD  307 (412)
Q Consensus       228 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  307 (412)
                      .+...|+...|++.+..+-...+- |...|..-..+|...|++..|+.=++...+.. .-|..++--+-..+-..|+.+.
T Consensus       164 s~~~~GD~~~ai~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHH
Confidence            344456666666666654322221 34556666677777777777765444444322 2234455555556666677777


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHH-------------HHHhccccchHHHHHHhc-cCCCCCCcc---cHHHHHHHHhc
Q 040580          308 LHLSLEHMKHESVGPDLVTYGCVVD-------------AYLDKRLGRNLDFGLSKM-NLDDSPVVS---TDPYVFEAFGK  370 (412)
Q Consensus       308 a~~~~~~m~~~g~~p~~~~~~~li~-------------~~~~~~~~~~a~~~~~~m-~~~~~p~~~---~~~~li~~~~~  370 (412)
                      .+...++..+  +.||...+-..-.             .....+++-++.+..+.. +..+.....   .+..+-.++..
T Consensus       242 sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~  319 (504)
T KOG0624|consen  242 SLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYRE  319 (504)
T ss_pred             HHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccc
Confidence            6666666554  4455432221111             112234444444444443 333331222   23334344444


Q ss_pred             -CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          371 -GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       371 -~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                       +.+-+|++...+...   .|..++.--..+|.-...|+.|
T Consensus       320 d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~A  360 (504)
T KOG0624|consen  320 DEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDA  360 (504)
T ss_pred             cCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHH
Confidence             777777776665433   4455665555666555544444

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

Probab=98.09  E-value=0.00034  Score=54.37  Aligned_cols=126  Identities=11%  Similarity=0.038  Sum_probs=57.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVD--SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDK--EGIRAVS  226 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~li  226 (412)
                      .|..++..+ ..++...+...++.+.+....-.  ....-.+...+...|++++|...|+.+......|+.  .....+.
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            344444443 25555555555666555421110  111112334455566666666666666554422211  1222234


Q ss_pred             HHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHH
Q 040580          227 FTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       227 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                      ..+...|++++|...++.......  ....+......|.+.|+.++|...|+.
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444445555555555544222222  224444555556666666666655543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.08  E-value=0.0084  Score=54.86  Aligned_cols=356  Identities=8%  Similarity=0.014  Sum_probs=193.2

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      |..+|+.||+-+... ..+++.+.++++... .+-.+..|..-|..-.+.++++.++.+|.+-+..  ..+...|...++
T Consensus        19 di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~lYl~   94 (656)
T KOG1914|consen   19 DIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWKLYLS   94 (656)
T ss_pred             cHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHHHHHH
Confidence            899999999987666 899999999999864 3446778899999999999999999999988765  456777777776


Q ss_pred             HHHcc-CCHHH----HHHHHHHH-hhcCCCCCHH-hHHHHHHHH---------HhcCChHHHHHHHHHHHHCCCCC----
Q 040580          123 AYGRI-GCFNE----IISIIDQV-SCRNADLLPE-VYSRAISCF---------GKQGQLELMENTLKEMVSRGFSV----  182 (412)
Q Consensus       123 ~~~~~-~~~~~----a~~~~~~m-~~~~~~~~~~-~~~~li~~~---------~~~g~~~~a~~~~~~m~~~g~~p----  182 (412)
                      .--+. |+...    ..+.|+-. .+.|+.+-.. .|+..+.-+         ..+.+++...+++.++...-+.-    
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkL  174 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKL  174 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHH
Confidence            54433 33322    33334432 2333333222 455544332         33345677778888876542210    


Q ss_pred             --ChHHHHHHHHHHH-------hcCCHHHHHHHHHHHHh--CCCCCCH--------------------------------
Q 040580          183 --DSATGNAFIIYYS-------RFGSLTEMETAYGRLKR--SRHLIDK--------------------------------  219 (412)
Q Consensus       183 --~~~~~~~li~~~~-------~~g~~~~a~~~~~~~~~--~~~~~~~--------------------------------  219 (412)
                        |-.+|..=|+...       +...+..|+++++++..  .|+.-..                                
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t  254 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccc
Confidence              1112221121111       22334455555555542  1111000                                


Q ss_pred             -----------HHHHHHHHHHHh---------------------ccc-------HHHHHHHHHHHhcCCCCcchHHHHHH
Q 040580          220 -----------EGIRAVSFTYLK---------------------ERK-------FFMLGEFLRDVGLGRKDLGNLLWNLL  260 (412)
Q Consensus       220 -----------~~~~~li~~~~~---------------------~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l  260 (412)
                                 .+|...+..+.-                     .|+       .+++..+++..-......+..+|..+
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~  334 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFAL  334 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                       011111111111                     111       12222222221000000011111111


Q ss_pred             HHHH---hcCCChHHHHHHHHHHHH-cCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHHH
Q 040580          261 LLSY---AGNFKMKSLQREFMRMSE-AGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAYL  335 (412)
Q Consensus       261 i~~~---~~~g~~~~a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~  335 (412)
                      ..-=   ..-...+.....+++... ..+.|+ .+|-.+|+.-.+..-++.|..+|.+..+.+..+ .+...++++.-||
T Consensus       335 a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c  413 (656)
T KOG1914|consen  335 ADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC  413 (656)
T ss_pred             HhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh
Confidence            1000   000123444445555442 222333 466677777777777888888888888877777 7777788887776


Q ss_pred             hccccchHHHHHHhc--cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc------CchHHHHHHHHHHHHcCcccc
Q 040580          336 DKRLGRNLDFGLSKM--NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR------QRKWTYRKLIAVYLKKQLRRN  406 (412)
Q Consensus       336 ~~~~~~~a~~~~~~m--~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~  406 (412)
                      . ++..-|.++|+.=  +.+..|-  --...++.+.. ++-..+.-+|++..+      ....+|..+++-=..-|+...
T Consensus       414 s-kD~~~AfrIFeLGLkkf~d~p~--yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~s  490 (656)
T KOG1914|consen  414 S-KDKETAFRIFELGLKKFGDSPE--YVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNS  490 (656)
T ss_pred             c-CChhHHHHHHHHHHHhcCCChH--HHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHH
Confidence            4 5666788888765  3333332  12344555566 666667777776554      235678888777666676544

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.07  E-value=0.00012  Score=60.36  Aligned_cols=179  Identities=13%  Similarity=0.080  Sum_probs=123.5

Q ss_pred             CCCChHHHH-HHHHHhhcc----ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHH
Q 040580           25 HPKNGDLAR-KIIRYRKQE----GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQ   99 (412)
Q Consensus        25 ~~~~~~~A~-~~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~   99 (412)
                      ..++.++-. ++.+.+..+    +......-...|...|++++|++......      +.+....=+..+.+..+++.|.
T Consensus        84 ~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~  157 (299)
T KOG3081|consen   84 LESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAE  157 (299)
T ss_pred             CcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHH
Confidence            344444433 344444433    22333334456788999999999887621      3333333445577888999999


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHH----ccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          100 VVWEELLSSSFVLSVQVLSDLMDAYG----RIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       100 ~~~~~m~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      +.++.|.+.+   +..|.+-|..++.    -.+.+.+|.-+|++|.++ .+|++.+.+-...++...|++++|..++++.
T Consensus       158 ~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~ea  233 (299)
T KOG3081|consen  158 KELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEA  233 (299)
T ss_pred             HHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHH
Confidence            9999998743   5556665555554    346789999999999765 4899999999999999999999999999999


Q ss_pred             HHCCCCCChHHHHHHHHHHHhcCC-HHHHHHHHHHHHhCC
Q 040580          176 VSRGFSVDSATGNAFIIYYSRFGS-LTEMETAYGRLKRSR  214 (412)
Q Consensus       176 ~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~~  214 (412)
                      ..+... +..+...+|..-...|. .+-..+.+.++....
T Consensus       234 L~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  234 LDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             HhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC
Confidence            887544 56666666665556665 455567777776553

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

Probab=98.04  E-value=0.00035  Score=54.31  Aligned_cols=21  Identities=14%  Similarity=0.199  Sum_probs=9.1

Q ss_pred             HHHHccCCHHHHHHHHHHHhh
Q 040580          122 DAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      ..+...|++++|...|+....
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~   76 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALA   76 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHh
Confidence            334444444444444444433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.04  E-value=0.0053  Score=51.03  Aligned_cols=50  Identities=20%  Similarity=0.160  Sum_probs=28.1

Q ss_pred             CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhC
Q 040580          268 FKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHE  318 (412)
Q Consensus       268 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  318 (412)
                      +...+|.-+|++|.++ ..|+..+.+-...++...|++++|..++++....
T Consensus       187 ek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             hhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            3455555666666542 2455555555555555666666666666555543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.02  E-value=8.3e-06  Score=44.41  Aligned_cols=29  Identities=38%  Similarity=0.532  Sum_probs=15.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRG  179 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g  179 (412)
                      +|+++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.00  E-value=8.8e-06  Score=44.31  Aligned_cols=29  Identities=14%  Similarity=0.232  Sum_probs=17.8

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcC
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEG   74 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g   74 (412)
                      +||.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666554

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.

>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=98.00  E-value=6.7e-05  Score=60.32  Aligned_cols=61  Identities=8%  Similarity=0.092  Sum_probs=47.2

Q ss_pred             HHHHHHHHh--hccChhhHHHHHHHHhcC-----CChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh
Q 040580           31 LARKIIRYR--KQEGFVDCASLVEDLGRK-----KKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN   91 (412)
Q Consensus        31 ~A~~~~~~~--~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~   91 (412)
                      .-...|+..  ..++..+|..+++.+.+.     |..+=....+..|.+.|+.-|..+|+.||..+=+
T Consensus        32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   32 PHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             chHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            345666665  456888899999888644     6677777888889999999999999999887644

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.94  E-value=0.0077  Score=49.74  Aligned_cols=160  Identities=12%  Similarity=0.001  Sum_probs=77.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHH-HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040580          152 YSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFI-IYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYL  230 (412)
Q Consensus       152 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li-~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  230 (412)
                      |..++-+....|+.+-|...++++..+=  |.+.-...+= --+-..|++++|.++++.+.+.. +.|..++-.=+...-
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilk  131 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILK  131 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHH
Confidence            3334444445555555555555555441  3221111111 11223455555555555555544 334444444444444


Q ss_pred             hcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccC---Chh
Q 040580          231 KERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMS---MFW  306 (412)
Q Consensus       231 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g---~~~  306 (412)
                      ..|+--+|.+-+.+.-..... |..+|.-+-..|...|++++|.-.++++.-.  .|- ..-|..+...+--.|   +.+
T Consensus       132 a~GK~l~aIk~ln~YL~~F~~-D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~  208 (289)
T KOG3060|consen  132 AQGKNLEAIKELNEYLDKFMN-DQEAWHELAEIYLSEGDFEKAAFCLEELLLI--QPFNPLYFQRLAEVLYTQGGAENLE  208 (289)
T ss_pred             HcCCcHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            444444444444432222222 4467777777777777777777777776643  343 333334444333222   345


Q ss_pred             HHHHHHHHHHh
Q 040580          307 DLHLSLEHMKH  317 (412)
Q Consensus       307 ~a~~~~~~m~~  317 (412)
                      .+.++|.+..+
T Consensus       209 ~arkyy~~alk  219 (289)
T KOG3060|consen  209 LARKYYERALK  219 (289)
T ss_pred             HHHHHHHHHHH
Confidence            56666666555

>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=97.92  E-value=0.00019  Score=57.73  Aligned_cols=87  Identities=16%  Similarity=0.110  Sum_probs=67.2

Q ss_pred             hHHHHHHHHHHhcC-----CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccC----------------ChhHHHHHH
Q 040580          254 NLLWNLLLLSYAGN-----FKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMS----------------MFWDLHLSL  312 (412)
Q Consensus       254 ~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g----------------~~~~a~~~~  312 (412)
                      ..+|..++..|.+.     |.++=....++.|.+.|+.-|..+|+.||+.+=+..                +-+-|.+++
T Consensus        47 K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL  126 (228)
T PF06239_consen   47 KATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLL  126 (228)
T ss_pred             HHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHH
Confidence            36666666666543     566666677888888888888889988888876522                235588999


Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHHhcccc
Q 040580          313 EHMKHESVGPDLVTYGCVVDAYLDKRLG  340 (412)
Q Consensus       313 ~~m~~~g~~p~~~~~~~li~~~~~~~~~  340 (412)
                      ++|..+|+.||..|+..|++.+.+.+.+
T Consensus       127 ~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  127 EQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            9999999999999999999999876544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.91  E-value=0.00028  Score=49.74  Aligned_cols=84  Identities=18%  Similarity=0.154  Sum_probs=31.4

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      +...|++++|...++...+.. +.+...+..+...+...++++.|.+.|++..... +.++.++..+...+...|+++.|
T Consensus        10 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a   87 (100)
T cd00189          10 YYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEEA   87 (100)
T ss_pred             HHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHHH
Confidence            333344444444444433322 1222333333344444444444444444333222 12222333333344444444444


Q ss_pred             HHHHHH
Q 040580          169 ENTLKE  174 (412)
Q Consensus       169 ~~~~~~  174 (412)
                      ...+.+
T Consensus        88 ~~~~~~   93 (100)
T cd00189          88 LEAYEK   93 (100)
T ss_pred             HHHHHH
Confidence            444433

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.02  Score=52.47  Aligned_cols=328  Identities=9%  Similarity=-0.038  Sum_probs=176.6

Q ss_pred             cccccccccCCCChHHHHHHHHHhhc--c-ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQ--E-GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      |..-..+|++.|++++|.+=-.+-.+  | -...|+....++.-.|++++|+.-|.+-.+.. +-+...++-+..++...
T Consensus        39 ySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~  117 (539)
T KOG0548|consen   39 YSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKD-PSNKQLKTGLAQAYLED  117 (539)
T ss_pred             hcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcC-CchHHHHHhHHHhhhHH
Confidence            44455678899999998876655443  3 34579999999999999999999999987753 33455677777776211


Q ss_pred             C---ChHHHHHHHHHHHhCC---CCcCHHHHHHHHHHHHcc----------CCHHHHHHHHHHH-----hhcC-------
Q 040580           93 G---FVLEAQVVWEELLSSS---FVLSVQVLSDLMDAYGRI----------GCFNEIISIIDQV-----SCRN-------  144 (412)
Q Consensus        93 ~---~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~----------~~~~~a~~~~~~m-----~~~~-------  144 (412)
                      .   +.-.--.++..+...-   .......|..++..+-+.          .++..+.-.+...     ...+       
T Consensus       118 ~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~  197 (539)
T KOG0548|consen  118 YAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASM  197 (539)
T ss_pred             HHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHHhcCccccccccccccCCCC
Confidence            0   0000001111111100   000111222222222111          0111111111000     0000       


Q ss_pred             CCC---------C-------------HHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH
Q 040580          145 ADL---------L-------------PEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTE  202 (412)
Q Consensus       145 ~~~---------~-------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  202 (412)
                      ..|         .             ..-.-.+.++..+..+++.+++-+.......  -+..-++..-.++...|...+
T Consensus       198 ~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~  275 (539)
T KOG0548|consen  198 AEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAE  275 (539)
T ss_pred             CCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHH
Confidence            000         0             0123345555666667777777777666643  244445555566666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHH-------HHHHHHhcccHHHHHHHHHHHhcCCCCcch---------------------
Q 040580          203 METAYGRLKRSRHLIDKEGIRA-------VSFTYLKERKFFMLGEFLRDVGLGRKDLGN---------------------  254 (412)
Q Consensus       203 a~~~~~~~~~~~~~~~~~~~~~-------li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------------  254 (412)
                      +...-+...+.|-. ...-|+.       +-.+|.+.++++.+...+.+.-.....|+.                     
T Consensus       276 c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~  354 (539)
T KOG0548|consen  276 CIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYIN  354 (539)
T ss_pred             hhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            65555554444321 1112222       223455556666666666654333333221                     


Q ss_pred             ----HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCC-HhhHHH
Q 040580          255 ----LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPD-LVTYGC  329 (412)
Q Consensus       255 ----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~  329 (412)
                          .-.-.-...+.+.|++..|+..|.+++... +-|...|....-+|.+.|.+..|++=.+..++.  .|+ ..-|..
T Consensus       355 pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~R  431 (539)
T KOG0548|consen  355 PEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLR  431 (539)
T ss_pred             hhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHH
Confidence                111112456778899999999999999774 445789999999999999999988776665553  333 222222


Q ss_pred             HHHHHHhccccchHHHHHHhc
Q 040580          330 VVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       330 li~~~~~~~~~~~a~~~~~~m  350 (412)
                      =..++.-..+++.+.+.|.+-
T Consensus       432 Kg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  432 KGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            222333355677777777766

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

Probab=97.87  E-value=0.0034  Score=54.88  Aligned_cols=212  Identities=14%  Similarity=0.143  Sum_probs=108.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSF  227 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  227 (412)
                      ......|-..|++++|.+.|.+....    +-.. -...|......|.+. ++++|...++..               +.
T Consensus        39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A---------------~~  102 (282)
T PF14938_consen   39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKA---------------IE  102 (282)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHH---------------HH
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHH---------------HH
Confidence            33344555666666666666654221    1110 112233333333333 566655555443               34


Q ss_pred             HHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC-CChHHHHHHHHHHHH----cCCCCc--HhHHHHHHHHHH
Q 040580          228 TYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN-FKMKSLQREFMRMSE----AGFHPD--LTTFNIRAVAFS  300 (412)
Q Consensus       228 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~----~~~~p~--~~~~~~ll~~~~  300 (412)
                      .|...|++..|-+.               +..+...|-.. |++++|+..|++..+    .| .|.  ...+..+...+.
T Consensus       103 ~y~~~G~~~~aA~~---------------~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~  166 (282)
T PF14938_consen  103 IYREAGRFSQAAKC---------------LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYA  166 (282)
T ss_dssp             HHHHCT-HHHHHHH---------------HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHH---------------HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHH
Confidence            56666666666443               33445566666 788888888777653    22 222  234556777788


Q ss_pred             ccCChhHHHHHHHHHHhCCC-----CCCHh-hHHHHHHHHHhccccchHHHHHHhc-cCCCC----CCcccHHHHHHHHh
Q 040580          301 RMSMFWDLHLSLEHMKHESV-----GPDLV-TYGCVVDAYLDKRLGRNLDFGLSKM-NLDDS----PVVSTDPYVFEAFG  369 (412)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~-----~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~----p~~~~~~~li~~~~  369 (412)
                      +.|++++|.++|++....-.     +++.. .|-..+-++...|++..|.+.++.. ...+.    ........||.++.
T Consensus       167 ~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~  246 (282)
T PF14938_consen  167 RLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE  246 (282)
T ss_dssp             HTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH
Confidence            88888888888888765322     22222 2223333555678888888888887 32221    11223456677776


Q ss_pred             cCCccc---HHHHHHHhccCchHHHHHHHH
Q 040580          370 KGDFHS---SSEAFLEFKRQRKWTYRKLIA  396 (412)
Q Consensus       370 ~~~~~~---a~~~~~~~~~~~~~~~~~l~~  396 (412)
                      .++.+.   ++.-|+.+.+-|..--..|+.
T Consensus       247 ~~D~e~f~~av~~~d~~~~ld~w~~~~l~~  276 (282)
T PF14938_consen  247 EGDVEAFTEAVAEYDSISRLDNWKTKMLLK  276 (282)
T ss_dssp             TT-CCCHHHHCHHHTTSS---HHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHcccCccHHHHHHHHHH
Confidence            655554   444455555555554444443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.80  E-value=0.00049  Score=59.94  Aligned_cols=142  Identities=13%  Similarity=0.119  Sum_probs=93.7

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHH-HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLC-YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      .+|-.+++...+.+..+.|.++|.+..+.+ ..+...|...... +...++.+.|..+|+...+. ++.+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            467777888888888888888888887543 2233444443333 33356677788888888775 46677788888888


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCH---HhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLP---EVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFI  191 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  191 (412)
                      +.+.++.+.|..+|++.... +..+.   ..|...+.-=.+.|+++.+..+.+++.+.  .|+......++
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~  147 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFS  147 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHH
Confidence            88888888888888888654 33333   37888888888888888888888877764  34433333333

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.

>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=97.80  E-value=0.00044  Score=48.74  Aligned_cols=95  Identities=15%  Similarity=0.061  Sum_probs=76.9

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      ++..+...+...|++++|.+.+++..+.. +.+...+..+...+...+++++|.+.++...+.. +.+..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            35566777788899999999999987753 3345677778888888999999999999988765 455578888889999


Q ss_pred             ccCCHHHHHHHHHHHhh
Q 040580          126 RIGCFNEIISIIDQVSC  142 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~  142 (412)
                      ..|+.+.|...+++..+
T Consensus        80 ~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          80 KLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHhHHHHHHHHHHHHc
Confidence            99999999999988754

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.77  E-value=0.0013  Score=48.95  Aligned_cols=96  Identities=16%  Similarity=0.132  Sum_probs=44.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCC--CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC--CCCHHhHHHHHHH
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSF--VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA--DLLPEVYSRAISC  158 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~  158 (412)
                      ..+...+.+.|++++|...|+.+.+...  +.....+..+..++.+.|+++.|.+.|+++....-  +..+.++..+..+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            3344444455555555555555544320  01123344455555555555555555555543221  1112344444455


Q ss_pred             HHhcCChHHHHHHHHHHHHC
Q 040580          159 FGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~  178 (412)
                      +.+.|++++|...++++.+.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHH
Confidence            55555555555555555544

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.

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

Probab=97.75  E-value=0.011  Score=51.73  Aligned_cols=95  Identities=9%  Similarity=0.010  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC-----CcHh-HHHHHHHHHHccCChhHHHHHHHHHHhC--CCCCC--H
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFH-----PDLT-TFNIRAVAFSRMSMFWDLHLSLEHMKHE--SVGPD--L  324 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-----p~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~--g~~p~--~  324 (412)
                      ..+..+...+.+.|++++|..+|++....-..     ++.. .|-..+-.+...|++..|.+.+++....  ++..+  .
T Consensus       156 ~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~  235 (282)
T PF14938_consen  156 ECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREY  235 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            45556667788888888888888887653221     2222 2222333455567888888888887643  33333  3


Q ss_pred             hhHHHHHHHHHhccccchHHHHHHhc
Q 040580          325 VTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       325 ~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      .....||.+| +.|+.+...+.+.+.
T Consensus       236 ~~~~~l~~A~-~~~D~e~f~~av~~~  260 (282)
T PF14938_consen  236 KFLEDLLEAY-EEGDVEAFTEAVAEY  260 (282)
T ss_dssp             HHHHHHHHHH-HTT-CCCHHHHCHHH
T ss_pred             HHHHHHHHHH-HhCCHHHHHHHHHHH
Confidence            4555556655 456666666555555

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.75  E-value=0.03  Score=50.37  Aligned_cols=374  Identities=11%  Similarity=0.053  Sum_probs=208.6

Q ss_pred             cCCCChHHHHHHHHHhhcc---C------hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHH--HHhc
Q 040580           24 THPKNGDLARKIIRYRKQE---G------FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLC--YANN   92 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~---~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~   92 (412)
                      -+.+++.+|.++|.++.+.   +      .+.-+.++++|-.. +.+.....+....+.  .| ...|-.|..+  +.+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            4788999999999998764   2      23355777777654 356666666666553  23 2233333332  4578


Q ss_pred             CChHHHHHHHHHHHhC--CCCc------------CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC----CCHHhHHH
Q 040580           93 GFVLEAQVVWEELLSS--SFVL------------SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD----LLPEVYSR  154 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~--~~~~------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----~~~~~~~~  154 (412)
                      +++.+|.+.+..-...  +-.|            |-..=+..++++.+.|+++++..+++++..+=++    .+.++||-
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            8999998887766553  2221            2233466778889999999999999988765444    67788988


Q ss_pred             HHHHHHhcC---------------ChHHHHHHHHHHHHC------CCCCChHHHHHHHHHHHhc--CCHHHHHHHHHHHH
Q 040580          155 AISCFGKQG---------------QLELMENTLKEMVSR------GFSVDSATGNAFIIYYSRF--GSLTEMETAYGRLK  211 (412)
Q Consensus       155 li~~~~~~g---------------~~~~a~~~~~~m~~~------g~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~~~  211 (412)
                      ++-.+.++=               -++.+.-..++|...      .+.|....+..++....-.  .+..--.+++....
T Consensus       173 ~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We  252 (549)
T PF07079_consen  173 AVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWE  252 (549)
T ss_pred             HHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHH
Confidence            665554431               133444444444332      3445555555555544432  23444455555555


Q ss_pred             hCCCCCCHH-HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc----chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC
Q 040580          212 RSRHLIDKE-GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL----GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFH  286 (412)
Q Consensus       212 ~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  286 (412)
                      ..-+.|+-. +...++..+.+  +.+++..+-+.+......+    =..+|..++...++.++..+|-+.+.-+.-.  .
T Consensus       253 ~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--d  328 (549)
T PF07079_consen  253 NFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--D  328 (549)
T ss_pred             hhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--C
Confidence            555566533 33344444443  3444444333322111100    1256777778888888888887777665532  2


Q ss_pred             CcH---------------------hHHH------------------------HHHH---HHHccCC-hhHHHHHHHHHHh
Q 040580          287 PDL---------------------TTFN------------------------IRAV---AFSRMSM-FWDLHLSLEHMKH  317 (412)
Q Consensus       287 p~~---------------------~~~~------------------------~ll~---~~~~~g~-~~~a~~~~~~m~~  317 (412)
                      |+.                     ..++                        .|+.   -+-+.|. -++|.++++...+
T Consensus       329 p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~  408 (549)
T PF07079_consen  329 PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ  408 (549)
T ss_pred             CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            211                     1111                        0111   1222344 5667777777655


Q ss_pred             CCCCC-CHhhHHHH----HHHHHh---ccccchHHHHHHhc-cCCCCCCccc----HHHHHHH---HhcCCcccHHHHHH
Q 040580          318 ESVGP-DLVTYGCV----VDAYLD---KRLGRNLDFGLSKM-NLDDSPVVST----DPYVFEA---FGKGDFHSSSEAFL  381 (412)
Q Consensus       318 ~g~~p-~~~~~~~l----i~~~~~---~~~~~~a~~~~~~m-~~~~~p~~~~----~~~li~~---~~~~~~~~a~~~~~  381 (412)
                      .  .| |..+-|.+    =.+|..   .+.+.+..++-+-+ ..|..|-...    -|.|-++   |++|+++++.-.-.
T Consensus       409 f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~  486 (549)
T PF07079_consen  409 F--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSS  486 (549)
T ss_pred             h--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            2  22 33333322    223332   23344444444445 4466554333    3444444   46688887755444


Q ss_pred             Hhcc--CchHHHHHHHHHHHHcCccccc
Q 040580          382 EFKR--QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       382 ~~~~--~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      .+..  |++.+|..++-+....++|++|
T Consensus       487 WL~~iaPS~~~~RLlGl~l~e~k~Y~eA  514 (549)
T PF07079_consen  487 WLTKIAPSPQAYRLLGLCLMENKRYQEA  514 (549)
T ss_pred             HHHHhCCcHHHHHHHHHHHHHHhhHHHH
Confidence            4333  6888888888888888888877

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.73  E-value=0.0017  Score=48.39  Aligned_cols=97  Identities=12%  Similarity=-0.056  Sum_probs=45.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CcCHHHHHHHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLL--PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSF--VLSVQVLSDLMD  122 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~  122 (412)
                      +..+...+.+.|++++|.+.|+.+.+....  .....+..+..++.+.|+++.|...|+.+.+...  +....++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            334444455555555555555555443110  0123344455555555555555555555544320  111334444555


Q ss_pred             HHHccCCHHHHHHHHHHHhhc
Q 040580          123 AYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      ++.+.|+.++|.+.++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555444

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=97.68  E-value=0.00014  Score=50.47  Aligned_cols=79  Identities=22%  Similarity=0.251  Sum_probs=31.5

Q ss_pred             CChHHHHHHHHHHHhCCCC-cCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           93 GFVLEAQVVWEELLSSSFV-LSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENT  171 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  171 (412)
                      |+++.|+.+++.+.+.... |+...+..+..+|.+.|++++|.+++++ ...+ +.++...-.+..++.+.|++++|+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4444555555554443211 1233333344555555555555555544 1111 11112222334444455555555544


Q ss_pred             HH
Q 040580          172 LK  173 (412)
Q Consensus       172 ~~  173 (412)
                      |+
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            44

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.68  E-value=0.034  Score=49.15  Aligned_cols=110  Identities=9%  Similarity=0.001  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH
Q 040580          221 GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFS  300 (412)
Q Consensus       221 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  300 (412)
                      +.+..|.-+...|....|.++..+.+.+    +...|-..+.+++..+++++...+...      +-+++.|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~----dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVP----DKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCc----HHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            3444455555666666666666655433    336666777777777777666554321      112366777777777


Q ss_pred             ccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          301 RMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      +.|+..+|..+...     +++     ..-+..|.+.|++.+|.+.-.+.
T Consensus       249 ~~~~~~eA~~yI~k-----~~~-----~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPK-----IPD-----EERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHh-----CCh-----HHHHHHHHHCCCHHHHHHHHHHc
Confidence            77777776666554     211     33355566666666665554333

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

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

Probab=97.67  E-value=0.0019  Score=58.40  Aligned_cols=85  Identities=14%  Similarity=0.127  Sum_probs=38.0

Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      ..|++++|...|++.++.+ +.+...|..+..+|.+.|++++|+..+++..+.+ +.++..|..+..+|...|++++|+.
T Consensus        14 ~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~   91 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKA   91 (356)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3444444444444444432 2334444444444444444444444444444332 2233344444444444444444444


Q ss_pred             HHHHHHH
Q 040580          171 TLKEMVS  177 (412)
Q Consensus       171 ~~~~m~~  177 (412)
                      .|++..+
T Consensus        92 ~~~~al~   98 (356)
T PLN03088         92 ALEKGAS   98 (356)
T ss_pred             HHHHHHH
Confidence            4444444

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

Probab=97.64  E-value=0.00013  Score=50.61  Aligned_cols=81  Identities=17%  Similarity=0.211  Sum_probs=53.4

Q ss_pred             CCChhHHHHHHHHHHhcCCC-CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHH
Q 040580           57 KKKPHLAHQLVNTVKSEGLL-PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIIS  135 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  135 (412)
                      .|+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++. .+.+ +.+....-.+..++.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            46778888888888775321 2344455577788888888888888877 3332 2233455556777888888888888


Q ss_pred             HHHH
Q 040580          136 IIDQ  139 (412)
Q Consensus       136 ~~~~  139 (412)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8765

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.61  E-value=0.003  Score=50.76  Aligned_cols=91  Identities=14%  Similarity=-0.004  Sum_probs=60.6

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC--HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD--NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDL  120 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  120 (412)
                      ....+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            444566667777777888888888887776432222  3566777777778888888888887777653 3345566666


Q ss_pred             HHHHHccCCHHHHH
Q 040580          121 MDAYGRIGCFNEII  134 (412)
Q Consensus       121 i~~~~~~~~~~~a~  134 (412)
                      ..++...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            66776666654443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.61  E-value=0.0021  Score=51.38  Aligned_cols=80  Identities=14%  Similarity=-0.027  Sum_probs=43.1

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCC--CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLP--DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      ..|..+...+...|++++|+..|++.......|  ...++..+...+...|++++|...++...+.. +....++..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            345555555566666666666666665432121  12355556666666666666666666665542 223344444444


Q ss_pred             HHH
Q 040580          123 AYG  125 (412)
Q Consensus       123 ~~~  125 (412)
                      .+.
T Consensus       115 i~~  117 (168)
T CHL00033        115 ICH  117 (168)
T ss_pred             HHH
Confidence            444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.61  E-value=0.0019  Score=51.68  Aligned_cols=95  Identities=17%  Similarity=0.086  Sum_probs=61.5

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCc--CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVL--SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      ...|..+...+...|++++|...|+........|  ...++..+...+...|++++|.+.+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4455666667777788888888888887653222  23577778888888888888888888776543 33344555555


Q ss_pred             HHHH-------hcCChHHHHHHHHH
Q 040580          157 SCFG-------KQGQLELMENTLKE  174 (412)
Q Consensus       157 ~~~~-------~~g~~~~a~~~~~~  174 (412)
                      ..+.       ..|+++.|+..+++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHH
Confidence            5555       55666655444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.60  E-value=0.005  Score=49.45  Aligned_cols=88  Identities=16%  Similarity=0.080  Sum_probs=65.4

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC--HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS--VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      ...+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|.+.+++..... +-++..+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            34567777788889999999999998887542222  4678888899999999999999999887654 33455677777


Q ss_pred             HHHHhcCChHH
Q 040580          157 SCFGKQGQLEL  167 (412)
Q Consensus       157 ~~~~~~g~~~~  167 (412)
                      ..+...|+...
T Consensus       114 ~~~~~~g~~~~  124 (172)
T PRK02603        114 VIYHKRGEKAE  124 (172)
T ss_pred             HHHHHcCChHh
Confidence            77777666433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.59  E-value=0.031  Score=46.35  Aligned_cols=184  Identities=11%  Similarity=0.003  Sum_probs=115.3

Q ss_pred             CCChHHHHHHHHHhhcc--------Ch-hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChH
Q 040580           26 PKNGDLARKIIRYRKQE--------GF-VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVL   96 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~--------~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~   96 (412)
                      ..+.++..+++..+...        +. ..|..++-+....|+.+.|..+++++..+- +-+...-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            34566677776665431        22 234455555566777888888888877652 222222211122245567888


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      +|.++|+.+++.+ +.|..++-.-+-..-..|+--+|++-+.+..+. +..|++.|.-+-..|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            8888888888776 566677766666666667766777777776654 46777888888888888888888888888887


Q ss_pred             HCCCCCCh-HHHHHHHHHHH---hcCCHHHHHHHHHHHHhCC
Q 040580          177 SRGFSVDS-ATGNAFIIYYS---RFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       177 ~~g~~p~~-~~~~~li~~~~---~~g~~~~a~~~~~~~~~~~  214 (412)
                      -.  .|.. ..|..+...+-   ...+.+.+...|....+..
T Consensus       182 l~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  182 LI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            63  4533 33334444333   2335666777777766543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.55  E-value=0.0033  Score=54.83  Aligned_cols=131  Identities=14%  Similarity=0.127  Sum_probs=85.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSS-FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      .+|..+++..-+.+..+.|..+|.+..+.+ +...+.+..+++..+ ..++.+.|.++|+...+. .+.++..|..-+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            457777777777777888888888887643 233444444444332 245666688888877655 45666777777788


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVD---SATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      +.+.|+.+.|..+|++.... +.++   ...|...+.-=.+.|+++.+..+.+.+.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88888888888888887765 2222   246777777777778888777777776653

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.50  E-value=0.0035  Score=48.25  Aligned_cols=95  Identities=14%  Similarity=0.040  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      .-.+...+...|++++|..+|+.+...+ +-+..-|-.|.-++-..|++.+|+..|......+ +-+|..+-.+-.++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            3334444556677777777776666654 3455556666666666677777777776665554 3455566666666667


Q ss_pred             cCChHHHHHHHHHHHHC
Q 040580          162 QGQLELMENTLKEMVSR  178 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~  178 (412)
                      .|+.+.|.+.|+.....
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            77777777766655443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.50  E-value=0.0032  Score=48.47  Aligned_cols=95  Identities=9%  Similarity=-0.021  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYS  195 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  195 (412)
                      ..-.+...+...|++++|.++|+-+...+ +-++.-|-.|-.++-..|++++|++.|.......+ -|...+-.+-.++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHH
Confidence            33444445556666666666666665444 33444555555666666666666666666655432 14455555666666


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 040580          196 RFGSLTEMETAYGRLKR  212 (412)
Q Consensus       196 ~~g~~~~a~~~~~~~~~  212 (412)
                      ..|+.+.|.+.|+....
T Consensus       115 ~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        115 ACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666665544

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

Probab=97.48  E-value=0.0045  Score=56.02  Aligned_cols=91  Identities=8%  Similarity=-0.062  Sum_probs=73.2

Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH
Q 040580           52 EDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN  131 (412)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  131 (412)
                      ..+...|++++|++.|++..+.. +-+...|..+..++.+.|++++|...++.+++.. +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            44556788999999998888764 3356777888888888999999999998888865 556778888888888999999


Q ss_pred             HHHHHHHHHhhcC
Q 040580          132 EIISIIDQVSCRN  144 (412)
Q Consensus       132 ~a~~~~~~m~~~~  144 (412)
                      +|...|++..+.+
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999998887654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.31  E-value=0.013  Score=48.65  Aligned_cols=142  Identities=11%  Similarity=0.070  Sum_probs=97.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH----
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVS----  226 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li----  226 (412)
                      +.+.++..+...|.+.-.++.+++..+...+-+......|.+.-.+.||.+.|...|+...+..-+.|..+.+.++    
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            4566777777888888889999999887666678888888999999999999999999887654444444444443    


Q ss_pred             -HHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          227 -FTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       227 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                       ..|.-++++..|...+.++....+. |...-|.-.-+..-.|+..+|++..+.|.+.  .|...+-+++
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence             3344567777777777665433322 2355554444444567888888888888765  4555554433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.28  E-value=0.092  Score=44.67  Aligned_cols=75  Identities=11%  Similarity=0.096  Sum_probs=43.9

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhH---HHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 040580          119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVY---SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY  194 (412)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  194 (412)
                      .....+.+.|++++|.+.|+++.... +-++..-   -.+..++.+.+++++|...+++..+....-...-+...+.+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~  114 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGL  114 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHH
Confidence            34445566778888888888776643 2223322   345566677788888888888777753322223344444443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.27  E-value=0.093  Score=44.64  Aligned_cols=198  Identities=11%  Similarity=-0.011  Sum_probs=112.7

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 040580          148 LPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATG---NAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRA  224 (412)
Q Consensus       148 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  224 (412)
                      ++..+-.....+...|++++|.+.|+++...-..+ ...-   -.+..++.+.++++.|...+++..+........-+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            34434344555677899999999999998863332 2222   2456778899999999999999987653333334444


Q ss_pred             HHHHHHhcccHHHHHHHHHHHhcCCCCcc-----hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHH
Q 040580          225 VSFTYLKERKFFMLGEFLRDVGLGRKDLG-----NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAF  299 (412)
Q Consensus       225 li~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  299 (412)
                      .+.+.+....-.....-+..+.....++.     ...+..++.-|-...-..+|..-+..++..   .-...+ .+..-|
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~---la~~e~-~ia~~Y  185 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDR---LAKYEL-SVAEYY  185 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHH---HHHHHH-HHHHHH
Confidence            44443310000000000000000000000     023445555555555555565544444421   111112 455568


Q ss_pred             HccCChhHHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          300 SRMSMFWDLHLSLEHMKHE--SVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       300 ~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      .+.|.+.-|..-++.+++.  +.+........++.+|.+.|..+++.++...+
T Consensus       186 ~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        186 TKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            8888888888888888763  44445667777888888888888888876655

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.27  E-value=0.027  Score=41.72  Aligned_cols=53  Identities=15%  Similarity=0.265  Sum_probs=25.8

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcC--HHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLS--VQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      +-..|+.++|..+|++....|+...  ...+-.+...+...|++++|..+|++..
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444555555555555555443332  2234444445555555555555555544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.27  E-value=0.22  Score=48.84  Aligned_cols=224  Identities=16%  Similarity=0.006  Sum_probs=152.6

Q ss_pred             cCCCChHHHHHHHHHhhcc-ChhhHHHHHHHH--hcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           24 THPKNGDLARKIIRYRKQE-GFVDCASLVEDL--GRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~-~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      ..++++..|.+-.+.+.++ ....|..++.++  .+.|+.++|..+++.....+.. |..|...+-..|...++.++|..
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHH
Confidence            3577889998888887654 333456666655  5789999999999988776644 88999999999999999999999


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC-C---------hHHHHH
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG-Q---------LELMEN  170 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~---------~~~a~~  170 (412)
                      +|++..+.  -|+......+..+|.+.+++.+-.++-=++-+ +.+-++..+=++++.....- .         ..-|.+
T Consensus        99 ~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~  175 (932)
T KOG2053|consen   99 LYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEK  175 (932)
T ss_pred             HHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHH
Confidence            99999876  47788888888999999888765444333332 34445555545555444321 1         234455


Q ss_pred             HHHHHHHCC-CCCChHHHHHHHHHHHhcCCHHHHHHHH-HHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC
Q 040580          171 TLKEMVSRG-FSVDSATGNAFIIYYSRFGSLTEMETAY-GRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG  248 (412)
Q Consensus       171 ~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~-~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  248 (412)
                      .++.+.+.+ -.-+..-...-...+...|++++|.+++ ....+.-...+...-+.-+..+...+++.+..++-.++-..
T Consensus       176 m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k  255 (932)
T KOG2053|consen  176 MVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEK  255 (932)
T ss_pred             HHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHh
Confidence            556665543 1112223333445566788899999998 44444444445556666778888888888888777776555


Q ss_pred             CCC
Q 040580          249 RKD  251 (412)
Q Consensus       249 ~~~  251 (412)
                      +.+
T Consensus       256 ~~D  258 (932)
T KOG2053|consen  256 GND  258 (932)
T ss_pred             CCc
Confidence            543

>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=97.26  E-value=0.0013  Score=43.42  Aligned_cols=51  Identities=18%  Similarity=0.162  Sum_probs=23.6

Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      +.|++++|.++|+.+.+.. +-+..++..+..+|.+.|++++|.++++++..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555544432 22444444455555555555555555554443

...

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

Probab=97.24  E-value=0.0022  Score=41.82  Aligned_cols=52  Identities=15%  Similarity=0.103  Sum_probs=23.4

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      +.+.|++++|...|+.+++.. +-+...+..+..++.+.|++++|...|+++.
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444444444444443 2234444444444444444444444444443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.18  E-value=0.02  Score=47.66  Aligned_cols=167  Identities=11%  Similarity=0.017  Sum_probs=98.1

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      +..+......+..+.+|++=.       ....+.+++.+.-.|.+.-....+..+++...+.+......|++.-.+.||.
T Consensus       156 i~~~e~~~~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~  228 (366)
T KOG2796|consen  156 LANLEQGLAEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDI  228 (366)
T ss_pred             HHHHHhccchhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccH
Confidence            333333333455566665432       2345556666666777777777777777766566677777777777777888


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHH-----HHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAI-----SCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMET  205 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li-----~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  205 (412)
                      +.|...|++..+..-..+..+.+.++     ..|.-++++..|...+.+.....-. |....|.=.-+..-.|+..+|.+
T Consensus       229 k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK  307 (366)
T KOG2796|consen  229 KTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALK  307 (366)
T ss_pred             HHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHH
Confidence            88877777666554444444444332     3345566777777777766654322 33333322222333577777777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHH
Q 040580          206 AYGRLKRSRHLIDKEGIRAVSF  227 (412)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~li~  227 (412)
                      ..+.|...  .|.+.+-++++-
T Consensus       308 ~~e~~~~~--~P~~~l~es~~~  327 (366)
T KOG2796|consen  308 QLEAMVQQ--DPRHYLHESVLF  327 (366)
T ss_pred             HHHHHhcc--CCccchhhhHHH
Confidence            77777765  344444444433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.17  E-value=0.18  Score=50.13  Aligned_cols=159  Identities=9%  Similarity=-0.003  Sum_probs=75.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH--HHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR--AISC  158 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~  158 (412)
                      .|..|...|....+...|...|+...+.+ ..+...+..+.+.|++..+++.|..+.-...+.. +...-.+|.  .--.
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhhhhcccc
Confidence            45555555555555555555555555544 3445555556666666666666655522221111 001112222  2222


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcccHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDK-EGIRAVSFTYLKERKFFM  237 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~  237 (412)
                      |...++...+..-|+...+..++ |...|..+..+|.+.|++..|.++|......  +|+. ..---.....+..|++.+
T Consensus       572 yLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHH
Confidence            34455555555555555443221 4455666666666666666666666554432  2221 111112223344555555


Q ss_pred             HHHHHHH
Q 040580          238 LGEFLRD  244 (412)
Q Consensus       238 a~~~~~~  244 (412)
                      +...+..
T Consensus       649 ald~l~~  655 (1238)
T KOG1127|consen  649 ALDALGL  655 (1238)
T ss_pred             HHHHHHH
Confidence            5555544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.16  E-value=0.072  Score=50.65  Aligned_cols=138  Identities=14%  Similarity=0.068  Sum_probs=79.8

Q ss_pred             CCCCCHHhHHHHHHHHHhc--C---ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC--------CHHHHHHHHHHH
Q 040580           74 GLLPDNSTLCALMLCYANN--G---FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG--------CFNEIISIIDQV  140 (412)
Q Consensus        74 g~~p~~~~~~~ll~~~~~~--~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~--------~~~~a~~~~~~m  140 (412)
                      +.+.+...|...+++....  +   +...|..+|++.++.. +-+...|..+..++....        +...+.+..++.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            3455667777777764432  2   2567777787777764 333445554433332211        122333333332


Q ss_pred             hhc-CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          141 SCR-NADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       141 ~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      ... ....++..|..+.......|++++|...+++....+  |+...|..+...+...|+.++|...+++.....
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            221 123445566666555556677777777777777753  566677777777777777777777777766543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.13  E-value=0.31  Score=47.86  Aligned_cols=196  Identities=13%  Similarity=0.028  Sum_probs=121.8

Q ss_pred             cccccccc--cCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH
Q 040580           16 RFNVPSHQ--THPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYA   90 (412)
Q Consensus        16 ~~~l~~~~--~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~   90 (412)
                      +..++.++  .+.|+.++|..+++....+   |..|...+-..|...++.++|..+|++..+.  -|+.+-...+..+|+
T Consensus        44 ~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayv  121 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYV  121 (932)
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHH
Confidence            44555554  4789999999888876543   8889999999999999999999999999875  678887888888999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC----------CHHHHHHHHHHHhhcCCCCCHH-hHHHHHHHH
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG----------CFNEIISIIDQVSCRNADLLPE-VYSRAISCF  159 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----------~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~  159 (412)
                      +.+++.+-.++--++-+. ++-+...|=++++.....-          -..-|.+.++.+.+.+-+.... -...-...+
T Consensus       122 R~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL  200 (932)
T KOG2053|consen  122 REKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLIL  200 (932)
T ss_pred             HHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHH
Confidence            988876654444444332 2344444444444443321          1234556666665544111111 111223334


Q ss_pred             HhcCChHHHHHHHHH-HHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          160 GKQGQLELMENTLKE-MVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~-m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      ...|.+++|.+++.. .-+.-..-+...-+.-+..+...+++.+..++-.++...|
T Consensus       201 ~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  201 ELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            566778888888743 3332222233444455556666667776666666666655

>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=97.10  E-value=0.0021  Score=42.42  Aligned_cols=51  Identities=22%  Similarity=0.242  Sum_probs=23.2

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 040580           57 KKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSS  108 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  108 (412)
                      .|++++|+++|+++.... +-+...+..+..+|.+.|++++|..+++.+...
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555544432 113444444445555555555555555544443

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.08  E-value=0.19  Score=44.53  Aligned_cols=108  Identities=15%  Similarity=0.123  Sum_probs=67.6

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYL  335 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  335 (412)
                      +.+..|.-+...|+...|.++-.+..    .|+..-|...+.+++..++|++...+-..    +  -++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHH
Confidence            44444556666777777766655543    57777777777777777777766654332    1  13456677777777


Q ss_pred             hccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHH
Q 040580          336 DKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLE  382 (412)
Q Consensus       336 ~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~  382 (412)
                      +.|...+|..+...+.         +.--+..|.+ |++.+|.+...+
T Consensus       249 ~~~~~~eA~~yI~k~~---------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPKIP---------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHhCC---------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            7777777777776641         2334555666 777776655443

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

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.06  E-value=0.047  Score=40.47  Aligned_cols=105  Identities=21%  Similarity=0.118  Sum_probs=75.9

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCC--HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC----HHHHHHHHHH
Q 040580           50 LVEDLGRKKKPHLAHQLVNTVKSEGLLPD--NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS----VQVLSDLMDA  123 (412)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~  123 (412)
                      ...++-..|+.++|+.+|++....|+...  ...+-.+.+.+...|++++|..+++......  |+    ......+.-+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHH
Confidence            45567778999999999999999887655  3456677888999999999999999988752  32    2333334457


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      +...|+.++|.+.+-.......    ..|.--|..|.
T Consensus        85 L~~~gr~~eAl~~~l~~la~~~----~~y~ra~~~ya  117 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALAETL----PRYRRAIRFYA  117 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHH----HHHHHHHHHHH
Confidence            7788999999988876653322    25555555543

>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=97.03  E-value=0.0041  Score=41.12  Aligned_cols=60  Identities=20%  Similarity=0.206  Sum_probs=26.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC-CHHHHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG-CFNEIISIIDQV  140 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m  140 (412)
                      .+|..+...+...|++++|+..|++.++.+ +.+...|..+..++.+.| ++++|.+.+++.
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~a   64 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKA   64 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence            334444444444444444444444444432 223344444444444444 344444444443

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.03  E-value=0.34  Score=46.60  Aligned_cols=124  Identities=11%  Similarity=-0.044  Sum_probs=76.9

Q ss_pred             cccccccCCCChHHHHHHHHHhhccC---hhhHHHHHHHHhcCCCh--hHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQEG---FVDCASLVEDLGRKKKP--HLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      .+++-+...+.+..|+++-+.+..|-   ...|.....-+.+..+.  +++.+.+++=.+... ....+|..+.+.....
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~-~~~iSy~~iA~~Ay~~  520 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL-TPGISYAAIARRAYQE  520 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccC-CCceeHHHHHHHHHhc
Confidence            45666777888999999988887764   45566666666665332  333444433333222 3456677777777889


Q ss_pred             CChHHHHHHHHHHHhCCC----CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           93 GFVLEAQVVWEELLSSSF----VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      |+.+.|..+.+.=...+.    -.+..-+...+.-+.+.|+.+....++-.+..
T Consensus       521 GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~  574 (829)
T KOG2280|consen  521 GRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKN  574 (829)
T ss_pred             CcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHH
Confidence            999999887765333221    01223355566667777777777766665543

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

Probab=97.01  E-value=0.0037  Score=40.72  Aligned_cols=58  Identities=17%  Similarity=0.151  Sum_probs=38.3

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          120 LMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      +...+.+.|++++|.+.|++..+.. +-++..+..+..++...|++++|...|++..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455666777777777777776654 345557777777777777777777777776553

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.99  E-value=0.25  Score=44.36  Aligned_cols=79  Identities=13%  Similarity=0.156  Sum_probs=48.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcC---CCCCHHhHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCChHHHHHH
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQVSCRN---ADLLPEVYSRAISCFGK---QGQLELMENTLKEMVSRGFSVDSATGNAF  190 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  190 (412)
                      ...++-+|-...+++...++++.+....   +.-++.+--....++.+   .|+.++|++++..+....-.++..+|..+
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~  223 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLL  223 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHH
Confidence            3345556777778888888888776431   11122222234455556   77888888888776555555667777766


Q ss_pred             HHHHH
Q 040580          191 IIYYS  195 (412)
Q Consensus       191 i~~~~  195 (412)
                      ...|-
T Consensus       224 GRIyK  228 (374)
T PF13281_consen  224 GRIYK  228 (374)
T ss_pred             HHHHH
Confidence            65553

>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=96.99  E-value=0.0055  Score=40.47  Aligned_cols=64  Identities=16%  Similarity=0.170  Sum_probs=43.6

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHH
Q 040580          113 SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG-QLELMENTLKEMVS  177 (412)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  177 (412)
                      +..+|..+...+.+.|++++|+..|++..+.+ +-++..|..+-.++...| ++++|+..+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            35566777777777777777777777776654 344557777777777777 57777777766554

...

>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=96.99  E-value=0.0062  Score=47.37  Aligned_cols=70  Identities=16%  Similarity=0.218  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCChHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS-----RGFSVDSAT  186 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~  186 (412)
                      +...++..+...|+++.|.++.+.+...+ +.+...|..+|.++...|+...|.++|+++.+     -|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34445555556666666666666666554 44555666666666666666666666665532     366665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.95  E-value=0.12  Score=49.08  Aligned_cols=71  Identities=11%  Similarity=-0.098  Sum_probs=41.3

Q ss_pred             CHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHH
Q 040580          218 DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTF  292 (412)
Q Consensus       218 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  292 (412)
                      ++..|..+.-.....|++++|...+++.....+  +...|..+...+...|+.++|...+++....  .|...||
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p--s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLEM--SWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            345555554444455666666666665444443  3366666677777777777777777666543  4444444

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.95  E-value=0.0063  Score=51.01  Aligned_cols=99  Identities=15%  Similarity=0.138  Sum_probs=66.1

Q ss_pred             HHHHHHHHhh--ccChhhHHHHHHHHhcC-----CChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC---------
Q 040580           31 LARKIIRYRK--QEGFVDCASLVEDLGRK-----KKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF---------   94 (412)
Q Consensus        31 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---------   94 (412)
                      ..+..|....  ++|..+|-+.+..+...     +.++=....++.|.+.|+..|..+|+.||..+=+-.-         
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3455666666  56888888888877543     5566677778899999999999999999987654321         


Q ss_pred             -------hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC
Q 040580           95 -------VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC  129 (412)
Q Consensus        95 -------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  129 (412)
                             -+-+..++++|...|+.||..+-..|++++.+.+-
T Consensus       132 F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                   12344555555555555555555555555555543

>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=96.94  E-value=0.0044  Score=46.37  Aligned_cols=99  Identities=5%  Similarity=-0.040  Sum_probs=58.1

Q ss_pred             CHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHH
Q 040580          218 DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAV  297 (412)
Q Consensus       218 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  297 (412)
                      |..++..++.++++.|+++....+++..-.-..           .+-...+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~-----------~~~~~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDV-----------NGKKKEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCC-----------CCccccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            345666667777777777666666654311110           00000000         0112345677777777777


Q ss_pred             HHHccCChhHHHHHHHHHHh-CCCCCCHhhHHHHHHHHHh
Q 040580          298 AFSRMSMFWDLHLSLEHMKH-ESVGPDLVTYGCVVDAYLD  336 (412)
Q Consensus       298 ~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~  336 (412)
                      +|+..|++..|.++++...+ .+++.+..+|..|++-...
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            77777778788777777654 5677677777777765543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.93  E-value=0.14  Score=40.49  Aligned_cols=151  Identities=11%  Similarity=-0.005  Sum_probs=102.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQL  165 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  165 (412)
                      ..+..+.-+++...+-..+-  ....|++.---.|..+..+.|+..+|...|++....-.--|+...-.+.++....+++
T Consensus        63 ~~a~~q~ldP~R~~Rea~~~--~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~  140 (251)
T COG4700          63 LMALQQKLDPERHLREATEE--LAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF  140 (251)
T ss_pred             HHHHHHhcChhHHHHHHHHH--HhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH
Confidence            33444444554443322222  2246777777888888899999999999999887655556666777788888888999


Q ss_pred             HHHHHHHHHHHHCC---CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHH
Q 040580          166 ELMENTLKEMVSRG---FSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFL  242 (412)
Q Consensus       166 ~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  242 (412)
                      ..|...++.+.+..   -.||  +.-.+.+.+...|+..+|+..|+.....-  |+...-......+.+.|+.+++..-+
T Consensus       141 A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         141 AAAQQTLEDLMEYNPAFRSPD--GHLLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHHHHhhcCCccCCCC--chHHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            99999888887753   2333  34456778888899988999998888653  55554444555566666666554433

>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=96.83  E-value=0.028  Score=42.06  Aligned_cols=48  Identities=17%  Similarity=-0.011  Sum_probs=21.7

Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 040580          180 FSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS-RHLIDKEGIRAVSF  227 (412)
Q Consensus       180 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~  227 (412)
                      ..|+..+..+++.+|+..|++..|.++.+...+. +++.+..+|..|++
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3444444444444444444444444444444332 33444444444444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.82  E-value=0.17  Score=39.99  Aligned_cols=156  Identities=17%  Similarity=0.129  Sum_probs=112.7

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ..+..+.=++++...-..+-.  ...|+..---.|..++.+.|+..+|...|++...--+.-|....-.+.++....+++
T Consensus        63 ~~a~~q~ldP~R~~Rea~~~~--~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~  140 (251)
T COG4700          63 LMALQQKLDPERHLREATEEL--AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF  140 (251)
T ss_pred             HHHHHHhcChhHHHHHHHHHH--hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH
Confidence            333444444544443333222  246777777889999999999999999999998755677888999999999999999


Q ss_pred             HHHHHHHHHHhhcCC-CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNA-DLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGR  209 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  209 (412)
                      ..|...++++-+.+. ..+|++.-.+...+...|.+..|..-|+.....  -|+...-...-..+.+.|+.+++..-+..
T Consensus       141 A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         141 AAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            999999998876541 234556777788999999999999999999885  44444333344456677776665544433


Q ss_pred             H
Q 040580          210 L  210 (412)
Q Consensus       210 ~  210 (412)
                      +
T Consensus       219 v  219 (251)
T COG4700         219 V  219 (251)
T ss_pred             H
Confidence            3

>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=96.80  E-value=0.016  Score=45.02  Aligned_cols=70  Identities=19%  Similarity=0.125  Sum_probs=50.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh-----hcCCCCCHHh
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS-----CRNADLLPEV  151 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~~~~~~  151 (412)
                      ....++..+...|+++.|..+.+.+.... |.|...|..+|.+|...|+...|.++|+++.     +-|+.|++.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34445566777899999999999998876 6688899999999999999999999998774     3477787764

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.78  E-value=0.12  Score=44.07  Aligned_cols=117  Identities=15%  Similarity=0.159  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           62 LAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        62 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      +...+-++++..|            .-+.+.+++++|+..|.+.++.. +-|.+-|..-..+|++.|.++.|.+-.+...
T Consensus        76 e~~~~AE~LK~eG------------N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al  142 (304)
T KOG0553|consen   76 EDKALAESLKNEG------------NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESAL  142 (304)
T ss_pred             hHHHHHHHHHHHH------------HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            3555556666554            23567778888888888887764 5566777777777888888887777666654


Q ss_pred             hcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 040580          142 CRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY  194 (412)
Q Consensus       142 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  194 (412)
                      ..+ +-...+|..|-.+|...|++++|++.|++..+  +.|+-.+|-.=+...
T Consensus       143 ~iD-p~yskay~RLG~A~~~~gk~~~A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  143 SID-PHYSKAYGRLGLAYLALGKYEEAIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             hcC-hHHHHHHHHHHHHHHccCcHHHHHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            322 11112777777888888888888887777666  566666666555444

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

Probab=96.75  E-value=0.12  Score=44.18  Aligned_cols=101  Identities=12%  Similarity=-0.000  Sum_probs=77.2

Q ss_pred             CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC---ChHHHHHHHHHHHHCCCCC-ChHH
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG---QLELMENTLKEMVSRGFSV-DSAT  186 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p-~~~~  186 (412)
                      +-|...|-.|...|...|+.+.|...|.+..+.. +.+++.+..+..++..+.   ...++.++|+++.+.  .| +..+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHH
Confidence            6678888888899999999999888888887664 677777776666655432   456788888888875  34 5566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          187 GNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       187 ~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      ...|-..+...|++.+|...|+.|.+..
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            6667778888888999988888888765

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.75  E-value=0.022  Score=47.95  Aligned_cols=88  Identities=16%  Similarity=0.125  Sum_probs=67.6

Q ss_pred             chHHHHHHHHHHhcC-----CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCC----------------hhHHHHH
Q 040580          253 GNLLWNLLLLSYAGN-----FKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSM----------------FWDLHLS  311 (412)
Q Consensus       253 ~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~----------------~~~a~~~  311 (412)
                      |..+|-..+..+...     +.++=....++.|.+.|+.-|..+|+.||+.+-+..-                -+=+..+
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            446666666666543     4566666678889999999999999999988766432                1237789


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcccc
Q 040580          312 LEHMKHESVGPDLVTYGCVVDAYLDKRLG  340 (412)
Q Consensus       312 ~~~m~~~g~~p~~~~~~~li~~~~~~~~~  340 (412)
                      +++|...|+.||..+-..|++++.+.+-.
T Consensus       146 LeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  146 LEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            99999999999999999999999887654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.71  E-value=0.61  Score=44.67  Aligned_cols=211  Identities=13%  Similarity=-0.018  Sum_probs=110.2

Q ss_pred             HHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHh-cCCCCC--------HHhHHHHHHHHHhcCChHHHHH
Q 040580           30 DLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKS-EGLLPD--------NSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        30 ~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~p~--------~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      ++|.+..+.  .|.+..|..+.......-.++.|...|-+... .|++.-        ...-.+=+.  +--|++++|++
T Consensus       680 edA~qfiEd--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek  755 (1189)
T KOG2041|consen  680 EDAIQFIED--NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEK  755 (1189)
T ss_pred             HHHHHHHhc--CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhh
Confidence            344444333  24455677777666666667777777655443 122210        001111111  22478888888


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLL----PEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      +|-+|-+++         ..|..+.+.|++-.+.++++.   .|-..+    .+.|+.+-..+.....|++|.+.+..-.
T Consensus       756 ~yld~drrD---------LAielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~  823 (1189)
T KOG2041|consen  756 LYLDADRRD---------LAIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCG  823 (1189)
T ss_pred             hhhccchhh---------hhHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            887776543         245666677777666555542   111111    1277777777777777777777765432


Q ss_pred             HCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHH
Q 040580          177 SRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLL  256 (412)
Q Consensus       177 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  256 (412)
                      .         -...+.++.+..++++.+.+-+.+.     -+....-.+.+++.+.|..++|.+.+-+...+.       
T Consensus       824 ~---------~e~~~ecly~le~f~~LE~la~~Lp-----e~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk-------  882 (1189)
T KOG2041|consen  824 D---------TENQIECLYRLELFGELEVLARTLP-----EDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK-------  882 (1189)
T ss_pred             c---------hHhHHHHHHHHHhhhhHHHHHHhcC-----cccchHHHHHHHHHhhchHHHHHHHHHhccCcH-------
Confidence            1         1123444444444444444433332     234445556666666666666666555432222       


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHH
Q 040580          257 WNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                        ..+..|...+++.+|.++-++
T Consensus       883 --aAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  883 --AAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHh
Confidence              223445555566666555444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.66  E-value=0.49  Score=42.96  Aligned_cols=362  Identities=9%  Similarity=-0.054  Sum_probs=189.7

Q ss_pred             cCCCChHHHHHHHHHhhcc------------------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcC----CCCCHHh
Q 040580           24 THPKNGDLARKIIRYRKQE------------------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEG----LLPDNST   81 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~p~~~~   81 (412)
                      -+.+.+.+|...+..-...                  |..-=+..++++...|.+.++..+++++...=    ..-+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            3677888887776542211                  22334566788899999999999999987643    3478999


Q ss_pred             HHHHHHHHHhcC--------ChHHHHHHHH-------HHHhC------CCCcCHHHHHHHHHHHHccC--CHHHHHHHHH
Q 040580           82 LCALMLCYANNG--------FVLEAQVVWE-------ELLSS------SFVLSVQVLSDLMDAYGRIG--CFNEIISIID  138 (412)
Q Consensus        82 ~~~ll~~~~~~~--------~~~~a~~~~~-------~m~~~------~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~  138 (412)
                      |+.++-.++++=        ..+-.-..|+       +|...      .+-|.......++....-..  +..--.++++
T Consensus       170 yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  170 YDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            998776665541        1111222222       22211      23344444444544443221  1112222233


Q ss_pred             HHhhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          139 QVSCRNADLLPE-VYSRAISCFGKQGQLELMENTLKEMVSRGFSV----DSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       139 ~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      .-...-+.|+-+ +...++..+..  +.+++..+-+.+....+.+    =..+|..++....+.++...|.+.+.-+.-.
T Consensus       250 ~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  250 NWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             HHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence            223333444443 34444444444  4555544444433322211    2467888999999999999999998877643


Q ss_pred             CCCCCHHHHHH-------HHHHHH-hc---ccHHHHHHHHHHHhcCCCCcchHHHHHH---HHHHhcCCC-hHHHHHHHH
Q 040580          214 RHLIDKEGIRA-------VSFTYL-KE---RKFFMLGEFLRDVGLGRKDLGNLLWNLL---LLSYAGNFK-MKSLQREFM  278 (412)
Q Consensus       214 ~~~~~~~~~~~-------li~~~~-~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l---i~~~~~~g~-~~~a~~~~~  278 (412)
                      .  |+...-..       +.+..+ .-   -+..+=..+++.......+- -..-..|   ..-+-+.|. -++|+.+++
T Consensus       328 d--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr-qQLvh~L~~~Ak~lW~~g~~dekalnLLk  404 (549)
T PF07079_consen  328 D--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR-QQLVHYLVFGAKHLWEIGQCDEKALNLLK  404 (549)
T ss_pred             C--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH-HHHHHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            2  33222111       122222 10   11222233444333322221 1122222   244556666 888999999


Q ss_pred             HHHHcCCCCcH-hH----HHHHHHHHHcc---CChhHHHHHHHHHHhCCCCCCH----hhHHHHHHH--HHhccccchHH
Q 040580          279 RMSEAGFHPDL-TT----FNIRAVAFSRM---SMFWDLHLSLEHMKHESVGPDL----VTYGCVVDA--YLDKRLGRNLD  344 (412)
Q Consensus       279 ~m~~~~~~p~~-~~----~~~ll~~~~~~---g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~--~~~~~~~~~a~  344 (412)
                      ...+-  .|.. ..    +..+=.+|...   ..+.+-..+-+-..+.|+.|-.    ..-|.|-+|  +...|++.++.
T Consensus       405 ~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~  482 (549)
T PF07079_consen  405 LILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCY  482 (549)
T ss_pred             HHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHH
Confidence            88854  3332 22    22222333332   2233334444444567888743    333444333  23467776554


Q ss_pred             HHHHhccCCCCCCcccHHHHHHHHh-cCCcccHHHHHHHhccCchHHHHHH
Q 040580          345 FGLSKMNLDDSPVVSTDPYVFEAFG-KGDFHSSSEAFLEFKRQRKWTYRKL  394 (412)
Q Consensus       345 ~~~~~m~~~~~p~~~~~~~li~~~~-~~~~~~a~~~~~~~~~~~~~~~~~l  394 (412)
                      -.-.- -..+.|++.+|..+--++. ..++.+|.+.+.++.+ |...|++=
T Consensus       483 ~ys~W-L~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~-n~~~~dsk  531 (549)
T PF07079_consen  483 LYSSW-LTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPP-NERMRDSK  531 (549)
T ss_pred             HHHHH-HHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC-chhhHHHH
Confidence            33222 3456788888877655443 4999999999988877 55555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.64  E-value=0.037  Score=47.08  Aligned_cols=117  Identities=15%  Similarity=0.091  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      +....-+.++..|            .-..+.+++.+|+..|.+..+-. +-+++-|..-..+|.+.|.++.|++=-+...
T Consensus        76 e~~~~AE~LK~eG------------N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al  142 (304)
T KOG0553|consen   76 EDKALAESLKNEG------------NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESAL  142 (304)
T ss_pred             hHHHHHHHHHHHH------------HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            4555566666655            33557799999999999997754 5667778888999999999999988777776


Q ss_pred             HCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040580          177 SRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYL  230 (412)
Q Consensus       177 ~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  230 (412)
                      .-  .| -..+|..|-.+|...|++++|.+.|+...+  +.|+..+|-.=+..--
T Consensus       143 ~i--Dp~yskay~RLG~A~~~~gk~~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  143 SI--DPHYSKAYGRLGLAYLALGKYEEAIEAYKKALE--LDPDNESYKSNLKIAE  193 (304)
T ss_pred             hc--ChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhc--cCCCcHHHHHHHHHHH
Confidence            63  44 346899999999999999999999888775  4677777766655544

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

Probab=96.64  E-value=0.3  Score=40.29  Aligned_cols=58  Identities=16%  Similarity=0.163  Sum_probs=31.2

Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCC--CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          121 MDAYGRIGCFNEIISIIDQVSCRNA--DLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      ...+...|++++|.+.|+++.....  +.-+...-.++.++.+.|+++.|...+++..+.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444556666666666666655421  111224445566666666666666666666554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.63  E-value=0.055  Score=46.48  Aligned_cols=97  Identities=7%  Similarity=0.002  Sum_probs=44.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-C-ChHHHHHHHH
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQVSCRNAD--LLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS-V-DSATGNAFII  192 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p-~~~~~~~li~  192 (412)
                      |...+..+.+.|++++|...|+.+....-.  ..+.++-.+...|...|++++|...|+.+.+.-.. | ....+-.+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            444343334445555555555555443211  01234455555555555555555555555543110 0 1122223334


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 040580          193 YYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      .+...|+.+.|..+|+.+.+.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555555555543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.62  E-value=0.042  Score=47.18  Aligned_cols=98  Identities=8%  Similarity=0.018  Sum_probs=66.9

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHccCCHHHHHHHHHHHhhcC--CCCCHHhH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS----VQVLSDLMDAYGRIGCFNEIISIIDQVSCRN--ADLLPEVY  152 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~  152 (412)
                      ...|...+....+.|++++|...|+.+++..  |+    ...+-.+..+|...|++++|...|+.+....  -+..++.+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            3445555555566678888888888877753  32    2466677788888888888888888886532  12234455


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      -.+...+...|+.++|..+|++..+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            55666777788888888888887775

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

Probab=96.51  E-value=0.25  Score=42.32  Aligned_cols=113  Identities=12%  Similarity=0.007  Sum_probs=86.5

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC---CHHHHHHHHHHHhhcCCCCCHHhH
Q 040580           76 LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG---CFNEIISIIDQVSCRNADLLPEVY  152 (412)
Q Consensus        76 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~  152 (412)
                      +-|...|-.|...|...|+...|..-|....+.. ++|...+..+..++....   +-.++.++|+++...+ +-++.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4478889999999999999999999999998864 567777777776665443   3467889999998766 5566677


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                      ..|...+...|++.+|...|+.|.+..  |....+..+|.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie  268 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHH
Confidence            888888999999999999999998863  33334444443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.42  E-value=0.63  Score=41.43  Aligned_cols=295  Identities=12%  Similarity=0.053  Sum_probs=178.4

Q ss_pred             HHHHHHHHh--cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHH--HhcCChHHHHHHHHHHHhCCCCcCHHH--HHHH
Q 040580           47 CASLVEDLG--RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCY--ANNGFVLEAQVVWEELLSSSFVLSVQV--LSDL  120 (412)
Q Consensus        47 ~~~li~~~~--~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~l  120 (412)
                      |.+|=.++.  -.|+-..|.++-.+-.+. +.-|......|+.+-  .-.|+.+.|.+-|+.|...   |....  ...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            444444443  346666666665544321 334555555555443  3469999999999999863   33322  2333


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCChH--HHHHHHHHHHh-
Q 040580          121 MDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG-FSVDSA--TGNAFIIYYSR-  196 (412)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~--~~~~li~~~~~-  196 (412)
                      .-.--+.|+.+.|.+.-++.-..- +.-+..+...+...+..|+|+.|+++++.-+... +.++..  .-..|+.+-.. 
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            334456788888888877775443 3345588899999999999999999998776543 344442  22334433222 


Q ss_pred             --cCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHH
Q 040580          197 --FGSLTEMETAYGRLKRSRHLIDKEGI-RAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSL  273 (412)
Q Consensus       197 --~g~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  273 (412)
                        ..+...|...-.+..  .+.||...- -.-..++.+.|++.++-.+++.+-...+.|  .++    ..|.....-+.+
T Consensus       240 ~ldadp~~Ar~~A~~a~--KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP--~ia----~lY~~ar~gdta  311 (531)
T COG3898         240 LLDADPASARDDALEAN--KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHP--DIA----LLYVRARSGDTA  311 (531)
T ss_pred             HhcCChHHHHHHHHHHh--hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCCh--HHH----HHHHHhcCCCcH
Confidence              124445555444433  345554332 233567888999999999999887777766  222    233333333344


Q ss_pred             HHHHHHHHH-cCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-ccccchHHHHHHhc
Q 040580          274 QREFMRMSE-AGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD-KRLGRNLDFGLSKM  350 (412)
Q Consensus       274 ~~~~~~m~~-~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~~~~~~a~~~~~~m  350 (412)
                      +.-+++... ..++|| ..+--.+..+-...|++..|..--+...  ...|....|..|.+.-.. .|+-+++...+.+-
T Consensus       312 ~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~--r~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA--REAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh--hhCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            444444442 235666 4555667777788888877665444332  357888888777665544 48888888888776


Q ss_pred             -cCCCCC
Q 040580          351 -NLDDSP  356 (412)
Q Consensus       351 -~~~~~p  356 (412)
                       +..-.|
T Consensus       390 v~APrdP  396 (531)
T COG3898         390 VKAPRDP  396 (531)
T ss_pred             hcCCCCC
Confidence             443334

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.39  E-value=0.17  Score=47.75  Aligned_cols=115  Identities=15%  Similarity=0.048  Sum_probs=54.0

Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHH-HHHHHHccCCHHHHHHHHHHHhhcC--C-CCCHHhHHHHHHHHHhcCChHHHH
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSD-LMDAYGRIGCFNEIISIIDQVSCRN--A-DLLPEVYSRAISCFGKQGQLELME  169 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~--~-~~~~~~~~~li~~~~~~g~~~~a~  169 (412)
                      +.+.|.++++.+.+.  -|+...|.. -.+.+...|++++|.+.|++.....  . +.....+--+.-.+.-.++|++|.
T Consensus       248 ~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  248 PLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            445555555555553  344333322 2233444556666666665433211  0 011113333444555666777777


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHH-HHhcCCH-------HHHHHHHHHHH
Q 040580          170 NTLKEMVSRGFSVDSATGNAFIIY-YSRFGSL-------TEMETAYGRLK  211 (412)
Q Consensus       170 ~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~-------~~a~~~~~~~~  211 (412)
                      +.|..+.+..- -+..+|.-+..+ +...|+.       ++|..+|.++.
T Consensus       326 ~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  326 EYFLRLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            77776665421 133333333322 2334555       66666666654

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.36  E-value=0.031  Score=37.29  Aligned_cols=52  Identities=15%  Similarity=0.116  Sum_probs=22.1

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      +.+.+++++|.++++.+.+.+ |.+...+.....++.+.|++++|.+.|+...
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            334444444444444444432 2233344444444444444444444444443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.26  E-value=0.04  Score=36.72  Aligned_cols=54  Identities=15%  Similarity=0.265  Sum_probs=24.4

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      .|.+.++++.|.++++.+...+ +.++..|......+.+.|++++|...|++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3444444444444444444332 22333444444444444444444444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.24  E-value=0.22  Score=43.67  Aligned_cols=130  Identities=7%  Similarity=0.044  Sum_probs=78.2

Q ss_pred             hhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh--cC----ChHHHHHHHHHHHhCCC---CcCHHHHHHHHHHHHccCCH
Q 040580           60 PHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN--NG----FVLEAQVVWEELLSSSF---VLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        60 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~~~~  130 (412)
                      +++.+++++.|.+.|.+-+..+|-+..-....  ..    ...++..+|+.|++...   .++..++..|+..  ...++
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45556788888888888787777654333333  22    34567888888887542   3445556666544  33333


Q ss_pred             ----HHHHHHHHHHhhcCCCCCHH--hHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCCCChHHHHHHH
Q 040580          131 ----NEIISIIDQVSCRNADLLPE--VYSRAISCFGKQGQ--LELMENTLKEMVSRGFSVDSATGNAFI  191 (412)
Q Consensus       131 ----~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~g~--~~~a~~~~~~m~~~g~~p~~~~~~~li  191 (412)
                          +.++.+|+.+.+.|+..+-.  ..+.++..+....+  ..++.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence                45677777777767655544  22233322222222  447778888888888887776665443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.23  E-value=0.067  Score=47.59  Aligned_cols=263  Identities=11%  Similarity=-0.034  Sum_probs=153.2

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHH--Hh--CCC-CcCHHHHHHHHHH
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGLLPDN----STLCALMLCYANNGFVLEAQVVWEEL--LS--SSF-VLSVQVLSDLMDA  123 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m--~~--~~~-~~~~~~~~~li~~  123 (412)
                      -+++.|+......+|+...+.|.. |.    ..|..|.++|.-.+++++|+++...=  +.  .|- .-...+...|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            468889999999999999887743 43    34666777777788888888765321  11  110 0112223333344


Q ss_pred             HHccCCHHHHHHHHHHH----hhcCC-CCCHHhHHHHHHHHHhcCC--------------------hHHHHHHHHHH---
Q 040580          124 YGRIGCFNEIISIIDQV----SCRNA-DLLPEVYSRAISCFGKQGQ--------------------LELMENTLKEM---  175 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m----~~~~~-~~~~~~~~~li~~~~~~g~--------------------~~~a~~~~~~m---  175 (412)
                      +--.|.+++|.-.-.+-    ++.|- ......+..+-..|...|.                    ++.|.++|.+=   
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            44445555554332111    11110 1111244445555544332                    33444444331   


Q ss_pred             -HHCCCC-CChHHHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHH---
Q 040580          176 -VSRGFS-VDSATGNAFIIYYSRFGSLTEMETAYGRLK----RSRHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDV---  245 (412)
Q Consensus       176 -~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~---  245 (412)
                       .+.|-. .....|..|-+.|.-.|+++.|....+.=.    +-|-+. ....+..+..++.-.|.++.|.+.++.-   
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence             111111 123456677777777889999887765432    223222 2345677778888889999888887752   


Q ss_pred             --hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHH----c-CCCCcHhHHHHHHHHHHccCChhHHHHHHHHHH
Q 040580          246 --GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSE----A-GFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       246 --~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                        ............-+|...|.-..++++|+..+.+-..    . ...-....+.+|-.+|...|.-++|+.+...-.
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence              3333333446777788888888889999888765321    1 123345788899999999999998887765543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.23  E-value=0.24  Score=43.33  Aligned_cols=129  Identities=12%  Similarity=0.121  Sum_probs=84.2

Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc--cC----CHHHHHHHHHHHhhcCCCCCH---HhHHHHHHHHHhcCC-
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR--IG----CFNEIISIIDQVSCRNADLLP---EVYSRAISCFGKQGQ-  164 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~--~~----~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~g~-  164 (412)
                      +++...+++.|.+.|++.+..+|-+..-....  ..    ...+|..+|+.|++...-.+.   .++..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44567889999999999988777664444333  22    346789999999887643332   266666554  3333 


Q ss_pred             ---hHHHHHHHHHHHHCCCCCCh--HHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHH
Q 040580          165 ---LELMENTLKEMVSRGFSVDS--ATGNAFIIYYSRFGS--LTEMETAYGRLKRSRHLIDKEGIRAV  225 (412)
Q Consensus       165 ---~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l  225 (412)
                         .+.++.+|+.+.+.|+..+.  ...+.++..+.....  ..++..+++.+.+.|+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence               35677888888888887643  333333333332222  44788889999999988776665544

>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=96.15  E-value=0.024  Score=38.41  Aligned_cols=25  Identities=16%  Similarity=0.494  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      +++.+...|...|++++|+..|++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~a   31 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKA   31 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444444444444433

...

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

Probab=96.12  E-value=0.63  Score=38.42  Aligned_cols=181  Identities=10%  Similarity=0.048  Sum_probs=104.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 040580          152 YSRAISCFGKQGQLELMENTLKEMVSRGFSV--DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTY  229 (412)
Q Consensus       152 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  229 (412)
                      .-.....+...|++++|...|+.+...-...  -....-.+..++-+.|+++.|...++...+.-.......+...+.+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            3344455678899999999999998763221  12344567788899999999999999988764322222333333333


Q ss_pred             HhcccHHHHHHHHHHHhcCCCCc-----chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCC
Q 040580          230 LKERKFFMLGEFLRDVGLGRKDL-----GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSM  304 (412)
Q Consensus       230 ~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~  304 (412)
                      +.........       ....+.     -...+..++.-|-...-..+|...+..+.+.   .-...+ .+..-|.+.|.
T Consensus        88 ~~~~~~~~~~-------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~e~-~ia~~Y~~~~~  156 (203)
T PF13525_consen   88 SYYKQIPGIL-------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEHEL-YIARFYYKRGK  156 (203)
T ss_dssp             HHHHHHHHHH--------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHHHH-HHHHHHHCTT-
T ss_pred             HHHHhCccch-------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHHHH-HHHHHHHHccc
Confidence            3221111110       000000     0145666677777777777776666665532   111122 35667889999


Q ss_pred             hhHHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhccccchH
Q 040580          305 FWDLHLSLEHMKHE--SVGPDLVTYGCVVDAYLDKRLGRNL  343 (412)
Q Consensus       305 ~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~~~~~~a  343 (412)
                      +..|..-++.+++.  +........-.++.+|.+.|..+.+
T Consensus       157 y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  157 YKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            99999888888764  2222345666778888888877643

>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=96.11  E-value=0.03  Score=37.99  Aligned_cols=62  Identities=21%  Similarity=0.238  Sum_probs=39.1

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CcC-HHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSS----SF-VLS-VQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      .+|+.+...|...|++++|+..|++..+.    |- .|+ ..+++.+..++...|++++|++.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666666777777777777777766542    11 122 4567777777777777777777777653

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.02  E-value=1.2  Score=42.33  Aligned_cols=86  Identities=13%  Similarity=0.028  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh----------
Q 040580          221 GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLT----------  290 (412)
Q Consensus       221 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~----------  290 (412)
                      +...+..-+.+...+.-|.++|.+|+.         ...++..+...+++.+|..+-++..+.  .||+.          
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~  817 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAEN  817 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhh
Confidence            333334444444555555566655532         234455556666666666555544332  33321          


Q ss_pred             -HHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          291 -TFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       291 -~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                       -|...-.+|-+.|+-.+|.++++++..
T Consensus       818 DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  818 DRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence             123333455666666666666665543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.95  E-value=0.24  Score=46.81  Aligned_cols=238  Identities=10%  Similarity=0.026  Sum_probs=135.5

Q ss_pred             ccccCCCChHHHHHHHH---------Hhhc--cChhhHHHHHHHHhcCCC--hhHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 040580           21 SHQTHPKNGDLARKIIR---------YRKQ--EGFVDCASLVEDLGRKKK--PHLAHQLVNTVKSEGLLPDNSTLCALML   87 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~---------~~~~--~~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~g~~p~~~~~~~ll~   87 (412)
                      ..|...|.+++|.++--         .+..  -+...++..=++|.+-++  +-+.+.-+++|+++|-.|+....   ..
T Consensus       564 ~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~  640 (1081)
T KOG1538|consen  564 YQYIERGLFKEAYQIACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---AD  640 (1081)
T ss_pred             hhhhhccchhhhhcccccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HH
Confidence            34567777777755421         1111  144456666667766554  34555566778888887886543   34


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHH-------Hh--h-----cCCCCCHHhHH
Q 040580           88 CYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQ-------VS--C-----RNADLLPEVYS  153 (412)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-------m~--~-----~~~~~~~~~~~  153 (412)
                      .|+-.|++.+|.++|.+-   |..      |..+..|.....+|.|.+++..       |.  +     +++.-.    -
T Consensus       641 ~~Ay~gKF~EAAklFk~~---G~e------nRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~keP----k  707 (1081)
T KOG1538|consen  641 VFAYQGKFHEAAKLFKRS---GHE------NRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEP----K  707 (1081)
T ss_pred             HHHhhhhHHHHHHHHHHc---Cch------hhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCc----H
Confidence            567788888888887543   322      2233444444455555444421       11  0     011111    1


Q ss_pred             HHHHHHHhcCChHHHHHHHHH-----H-HHCCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 040580          154 RAISCFGKQGQLELMENTLKE-----M-VSRGFS---VDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRA  224 (412)
Q Consensus       154 ~li~~~~~~g~~~~a~~~~~~-----m-~~~g~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  224 (412)
                      +....+..+|+.++|..+.-+     | .+-+-+   .+..+...+..-+.+...+..|.++|..|-..         .+
T Consensus       708 aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ks  778 (1081)
T KOG1538|consen  708 AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KS  778 (1081)
T ss_pred             HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HH
Confidence            233445566777777655421     1 111111   23345555555555666777888888877532         35


Q ss_pred             HHHHHHhcccHHHHHHHHHHHhcCCCCc---------chHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          225 VSFTYLKERKFFMLGEFLRDVGLGRKDL---------GNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       225 li~~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      +++.....+++++|..+-++...-.+++         ...-|.-.-++|.++|+-.+|.++++++...
T Consensus       779 iVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  779 LVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            6777788889999888887653333221         0122344457888889999999999888754

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.89  E-value=0.57  Score=35.95  Aligned_cols=42  Identities=12%  Similarity=0.198  Sum_probs=19.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc
Q 040580           85 LMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI  127 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  127 (412)
                      ++..+...+.+.....+++.+.+.+ +.+...++.++..|++.
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            3344444444444444444444443 23444445555555443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.87  E-value=0.64  Score=42.21  Aligned_cols=131  Identities=13%  Similarity=0.100  Sum_probs=70.9

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSS-FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      ...|...|+..-+..-++.|..+|-+..+.| +.+++.+++++|..++ .|+...|.++|+--... .+-++.--+..+.
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~  474 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHH
Confidence            3455556666556666666666666666666 4556666666666554 34555666666543322 2222223334555


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCC--hHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          158 CFGKQGQLELMENTLKEMVSRGFSVD--SATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      -+.+.++-+.|..+|+....+ +..+  ...|..+|.-=..-|++..+..+-+.+..
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            555666666666666643332 1112  34566666666666666665555555543

>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=95.80  E-value=0.7  Score=36.38  Aligned_cols=53  Identities=19%  Similarity=0.231  Sum_probs=27.4

Q ss_pred             HHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHH
Q 040580          135 SIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFI  191 (412)
Q Consensus       135 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  191 (412)
                      +.++.+.+.++++++..|..++..+.+.|++..    +.++.+.++-||.......+
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~L   67 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQL   67 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHH
Confidence            334444455555555566666666666655443    34444555555554444333

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.80  E-value=1.3  Score=39.51  Aligned_cols=284  Identities=10%  Similarity=-0.011  Sum_probs=179.5

Q ss_pred             CCCChHHHHHHHHHhhc---cChhhHHHHHHHH--hcCCChhHHHHHHHHHHhcCCCCCHHh--HHHHHHHHHhcCChHH
Q 040580           25 HPKNGDLARKIIRYRKQ---EGFVDCASLVEDL--GRKKKPHLAHQLVNTVKSEGLLPDNST--LCALMLCYANNGFVLE   97 (412)
Q Consensus        25 ~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~~--~~~ll~~~~~~~~~~~   97 (412)
                      -.|+-..|+++-.+..+   .|....-.++.+-  .-.|+.+.|.+-|+.|...   |....  ...|.-..-+.|+.+.
T Consensus        96 gAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          96 GAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             ccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            46777888887766543   3544444444433  3469999999999999863   33332  2334444567899999


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCCHH--hHHHHHHHHH---hcCChHHHHHH
Q 040580           98 AQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-DLLPE--VYSRAISCFG---KQGQLELMENT  171 (412)
Q Consensus        98 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~--~~~~li~~~~---~~g~~~~a~~~  171 (412)
                      |.+.-+..-..- +-=...+.+.+...+..|+++.|+++++.-+...+ .++..  .-..|+.+-.   -..+...|.+.
T Consensus       173 Ar~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         173 ARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            999888877653 33457889999999999999999999997766542 22221  2223332221   12345566655


Q ss_pred             HHHHHHCCCCCChH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHH--HHHHHHHHHhcC
Q 040580          172 LKEMVSRGFSVDSA-TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFF--MLGEFLRDVGLG  248 (412)
Q Consensus       172 ~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~~~~~  248 (412)
                      -.+..+  +.||.. .-..-..++.+.|++.++-.+++.+-+....|+  .+.  +..+.+.|+.-  ...+. ..+..-
T Consensus       252 A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~--lY~~ar~gdta~dRlkRa-~~L~sl  324 (531)
T COG3898         252 ALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IAL--LYVRARSGDTALDRLKRA-KKLESL  324 (531)
T ss_pred             HHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHH--HHHHhcCCCcHHHHHHHH-HHHHhc
Confidence            555444  566543 233455788999999999999999988754444  332  23344555532  22211 111111


Q ss_pred             CCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH-ccCChhHHHHHHHHHHhCCCCC
Q 040580          249 RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFS-RMSMFWDLHLSLEHMKHESVGP  322 (412)
Q Consensus       249 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-~~g~~~~a~~~~~~m~~~g~~p  322 (412)
                      .++ +...--.+..+-...|++..|..--+.....  .|....|..|.+.-. ..|+-.++...+.+..+..-.|
T Consensus       325 k~n-naes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         325 KPN-NAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             Ccc-chHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            222 2356666677778889998887766665543  788888877777654 4589999998888877643333

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.74  E-value=2.3  Score=41.91  Aligned_cols=71  Identities=6%  Similarity=-0.046  Sum_probs=41.8

Q ss_pred             HHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCccc----HHHHHHHhccCchHHHHHHHHHHHHcCc
Q 040580          330 VVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHS----SSEAFLEFKRQRKWTYRKLIAVYLKKQL  403 (412)
Q Consensus       330 li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~----a~~~~~~~~~~~~~~~~~l~~~~~~~g~  403 (412)
                      ++..+....+++.+....+.....   +...|..+++.+.+ +..++    ..+++..+...+...-..+++.+++.+.
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~~---~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~VL~~Lakn~~  786 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGKE---DPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLHVLQILAKNGT  786 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCcc---ChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHHHHHHHhcCCc
Confidence            444555666666666666666322   44556677777766 54443    3444444555666666777777777654

>PRK15331 chaperone protein SicA; Provisional

Probab=95.71  E-value=0.56  Score=36.60  Aligned_cols=87  Identities=9%  Similarity=-0.066  Sum_probs=45.2

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      +-..|++++|..+|.-+.-.+ +-|..-|..|..++-..+++++|...|...-..+ .-||..+-..-.++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHH
Confidence            345566666666666555544 2344445555555555566666666555443333 23333344444555555555555


Q ss_pred             HHHHHHHHH
Q 040580          169 ENTLKEMVS  177 (412)
Q Consensus       169 ~~~~~~m~~  177 (412)
                      ...|.....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            555555544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.65  E-value=0.72  Score=35.38  Aligned_cols=129  Identities=9%  Similarity=0.042  Sum_probs=81.5

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ......++..+...+.+......++.+...+ ..+...++.++..|++.+. +.....++.      .++......+++.
T Consensus         7 ~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~   78 (140)
T smart00299        7 PIDVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKL   78 (140)
T ss_pred             cCCHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHH
Confidence            3345677888887888999999999988876 3677788899999887643 333344332      1233334557777


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc-CChHHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ-GQLELMENTLKEMVSRGFSVDSATGNAFIIYYS  195 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  195 (412)
                      |.+.+.++++.-++.++..         |...+..+... ++++.|.+++.+-      -+...|..++..+.
T Consensus        79 c~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       79 CEKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             HHHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            7777777777777776621         22233333333 6777777766641      14456666665554

>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=95.60  E-value=0.66  Score=34.57  Aligned_cols=63  Identities=13%  Similarity=0.145  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040580          152 YSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH  215 (412)
Q Consensus       152 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  215 (412)
                      .+..+......|.-++-.++..++.+. -+|++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            334444444555555554555444431 233444444444555555555555555555544443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.44  E-value=0.36  Score=44.16  Aligned_cols=63  Identities=11%  Similarity=-0.035  Sum_probs=38.5

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSV----QVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      +...++.+..+|.+.|++++|...|++.++.+  |+.    .+|..+..+|...|+.++|++.+++..+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34556666666666666666666666666542  332    2466666666666666666666666654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.39  E-value=0.38  Score=43.98  Aligned_cols=64  Identities=17%  Similarity=0.009  Sum_probs=54.5

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDN----STLCALMLCYANNGFVLEAQVVWEELLSS  108 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  108 (412)
                      +...|+.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|...|+.++|...++..++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5667888999999999999999999998875  5663    35888999999999999999999999875

>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=95.36  E-value=0.58  Score=43.61  Aligned_cols=153  Identities=16%  Similarity=0.028  Sum_probs=97.6

Q ss_pred             CCCChHHHHHHHH--Hhh-ccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           25 HPKNGDLARKIIR--YRK-QEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVV  101 (412)
Q Consensus        25 ~~~~~~~A~~~~~--~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  101 (412)
                      -.++++++.+..+  ++. .-+....+.+++.+-+.|.++.|+++-..-..            -.....+.|+++.|.++
T Consensus       273 ~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~  340 (443)
T PF04053_consen  273 LRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEI  340 (443)
T ss_dssp             HTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHH
T ss_pred             HcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHH
Confidence            3556666544443  111 11344578888888888988888887654332            23445677888888765


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 040580          102 WEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS  181 (412)
Q Consensus       102 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  181 (412)
                      -++      .++...|..|.+...+.|+++-|++.|++..         -|..|+--|.-.|+.+...++.+....+|- 
T Consensus       341 a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~-  404 (443)
T PF04053_consen  341 AKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERGD-  404 (443)
T ss_dssp             CCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT--
T ss_pred             HHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHccC-
Confidence            432      3467799999999999999999999998774         367777788888998888888877777653 


Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          182 VDSATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       182 p~~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                           ++....++.-.|+.++..+++..-
T Consensus       405 -----~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  405 -----INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             -----HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             -----HHHHHHHHHHcCCHHHHHHHHHHc
Confidence                 444555556668877777666543

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.

>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=95.31  E-value=0.69  Score=43.12  Aligned_cols=159  Identities=11%  Similarity=0.040  Sum_probs=97.8

Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH
Q 040580           52 EDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN  131 (412)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  131 (412)
                      +...-.|+++++.+..+.-.-.. .....-.+.+++-+.+.|.++.|+++-.+-.            .-.....+.|+++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NIPKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G--HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cCChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            34455678888777664111110 1124557788888888999999888653322            2245566789999


Q ss_pred             HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          132 EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       132 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      .|.++.++.      .++..|..|-....+.|+++-|++.|.+...         |..|+-.|.-.|+.+...++.+...
T Consensus       336 ~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  336 IALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH
Confidence            887776544      3567899999999999999999988876543         6667777888888888888877777


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHH
Q 040580          212 RSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       212 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  244 (412)
                      ..|-      ++....++.-.|++++..+++.+
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            6652      34444455555666665555553

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.22  E-value=1.8  Score=40.87  Aligned_cols=164  Identities=12%  Similarity=-0.039  Sum_probs=105.7

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCh-----HHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCH
Q 040580          150 EVYSRAISCFGKQGQLELMENTLKEMVSR-GFSVDS-----ATGNAFIIYYSR----FGSLTEMETAYGRLKRSRHLIDK  219 (412)
Q Consensus       150 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~-----~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~  219 (412)
                      ..+..+++..+-.||-+.+++.+.+-.+. |+.-..     -.|..++..++.    ..+.+.|.+++..+.+.  -|+.
T Consensus       189 p~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s  266 (468)
T PF10300_consen  189 PKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNS  266 (468)
T ss_pred             HHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCc
Confidence            35556667777889999999998886553 232111     224444444443    34678899999998875  3666


Q ss_pred             HHHHHH-HHHHHhcccHHHHHHHHHHHhcC---CCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          220 EGIRAV-SFTYLKERKFFMLGEFLRDVGLG---RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       220 ~~~~~l-i~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                      ..|... ...+...|++++|.+.|++....   -+......+--+.-.+...+++++|...|.++.+.. ..+..+|.-+
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~  345 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYL  345 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHH
Confidence            665554 34555689999999999964321   112222344455666778899999999999999753 3444555444


Q ss_pred             HHHH-HccCCh-------hHHHHHHHHHH
Q 040580          296 AVAF-SRMSMF-------WDLHLSLEHMK  316 (412)
Q Consensus       296 l~~~-~~~g~~-------~~a~~~~~~m~  316 (412)
                      ..+| ...|+.       ++|.++|.+..
T Consensus       346 ~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  346 AAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            4333 356666       77888887754

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.20  E-value=4.4  Score=41.67  Aligned_cols=31  Identities=23%  Similarity=0.190  Sum_probs=18.2

Q ss_pred             CCCHHhHHHHHHHHHhcC--ChHHHHHHHHHHHh
Q 040580           76 LPDNSTLCALMLCYANNG--FVLEAQVVWEELLS  107 (412)
Q Consensus        76 ~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~  107 (412)
                      .|+ .-...+|.++.+.+  .++.++........
T Consensus       788 ~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  788 APD-KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            444 33445677777776  56666665555553

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.15  E-value=4.6  Score=41.59  Aligned_cols=45  Identities=13%  Similarity=0.134  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC--ChHHHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQG--QLELMENTLKEMVS  177 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~  177 (412)
                      +...+.+.....+. .|+ .-.-.+|.+|.+.+  .++.++....+.+.
T Consensus       774 ~~vc~~vr~~l~~~-~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  774 NSVCDAVRNALERR-APD-KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             HHHHHHHHHHHhhc-Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            33444444443333 233 23345778888887  77788877777765

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.08  E-value=2.5  Score=38.18  Aligned_cols=99  Identities=10%  Similarity=0.067  Sum_probs=68.6

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC---CCCChHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHH
Q 040580          147 LLPEVYSRAISCFGKQGQLELMENTLKEMVSRG---FSVDSATGNAFIIYYSR---FGSLTEMETAYGRLKRSRHLIDKE  220 (412)
Q Consensus       147 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  220 (412)
                      .++++...++-+|-...+++..+++++.+..-.   +.-+...-....-++.+   .|+.++|.+++..+....-.+++.
T Consensus       139 ls~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d  218 (374)
T PF13281_consen  139 LSPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPD  218 (374)
T ss_pred             cChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChH
Confidence            445566667777999999999999999998751   11122222234445566   899999999999976666678888


Q ss_pred             HHHHHHHHHHhc---------ccHHHHHHHHHHH
Q 040580          221 GIRAVSFTYLKE---------RKFFMLGEFLRDV  245 (412)
Q Consensus       221 ~~~~li~~~~~~---------~~~~~a~~~~~~~  245 (412)
                      ++..+...|-..         ..+++|.+.+.+-
T Consensus       219 ~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kg  252 (374)
T PF13281_consen  219 TLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKG  252 (374)
T ss_pred             HHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHH
Confidence            888887777542         2355666666653

>PRK15331 chaperone protein SicA; Provisional

Probab=94.99  E-value=1.3  Score=34.58  Aligned_cols=92  Identities=5%  Similarity=-0.093  Sum_probs=70.9

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 040580          119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFG  198 (412)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  198 (412)
                      ....-+-..|++++|..+|+-+..-+ ..++.-|..|..++-..+++++|+..|...-..+.. |...+--.-.++...|
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~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhC
Confidence            34444567899999999999887766 466777777888888899999999999876554332 3334445677888999


Q ss_pred             CHHHHHHHHHHHHh
Q 040580          199 SLTEMETAYGRLKR  212 (412)
Q Consensus       199 ~~~~a~~~~~~~~~  212 (412)
                      +.+.|...|.....
T Consensus       120 ~~~~A~~~f~~a~~  133 (165)
T PRK15331        120 KAAKARQCFELVNE  133 (165)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999988887

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.99  E-value=1.5  Score=37.64  Aligned_cols=173  Identities=15%  Similarity=0.139  Sum_probs=111.3

Q ss_pred             HHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 040580           31 LARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSF  110 (412)
Q Consensus        31 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  110 (412)
                      ..+++++++..+....--.-.......|++.+|..+|....... +-+...--.+..++...|+.+.|..++..+....-
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~  199 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ  199 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccch
Confidence            44566666655422222223445667899999999999888763 22456667788889999999999999998865432


Q ss_pred             CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCChHHHH
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR--GFSVDSATGN  188 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~  188 (412)
                      .........-|..+.+.....+...+-++... + +-|...--.+...+...|+.+.|++.+-.+.++  |.. |...-.
T Consensus       200 ~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aa-d-Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk  276 (304)
T COG3118         200 DKAAHGLQAQIELLEQAAATPEIQDLQRRLAA-D-PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARK  276 (304)
T ss_pred             hhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHh-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHH
Confidence            22223333445555555555555555555432 2 335566677888889999999999888777665  333 556667


Q ss_pred             HHHHHHHhcCCHHHHHHHH
Q 040580          189 AFIIYYSRFGSLTEMETAY  207 (412)
Q Consensus       189 ~li~~~~~~g~~~~a~~~~  207 (412)
                      .++..+.-.|..+.+...+
T Consensus       277 ~lle~f~~~g~~Dp~~~~~  295 (304)
T COG3118         277 TLLELFEAFGPADPLVLAY  295 (304)
T ss_pred             HHHHHHHhcCCCCHHHHHH
Confidence            7888777777444444333

>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=94.98  E-value=1.1  Score=33.48  Aligned_cols=139  Identities=14%  Similarity=0.089  Sum_probs=81.7

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHH
Q 040580           90 ANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELME  169 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  169 (412)
                      .-.|.+++..++..+..+.   .+..-+|.+|.-....-+-+-..++++.+-.   -.|..          ..|++....
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDis----------~C~NlKrVi   76 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDIS----------KCGNLKRVI   76 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-GG----------G-S-THHHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCch----------hhcchHHHH
Confidence            3467778888888777763   3555666666665555666666666665532   12221          223333333


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC
Q 040580          170 NTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR  249 (412)
Q Consensus       170 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  249 (412)
                      ..+-.+-     .+...+...+......|+-+...+++.++.+ +-.+++...-.+..+|.+.|+..++.+++.+.-..+
T Consensus        77 ~C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   77 ECYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            2222211     2455667778888899999999999999876 336788888899999999999999999998876555


Q ss_pred             C
Q 040580          250 K  250 (412)
Q Consensus       250 ~  250 (412)
                      .
T Consensus       151 ~  151 (161)
T PF09205_consen  151 L  151 (161)
T ss_dssp             -
T ss_pred             h
Confidence            4

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.98  E-value=2.3  Score=37.16  Aligned_cols=160  Identities=14%  Similarity=0.061  Sum_probs=84.3

Q ss_pred             cCCChhHHHHHHHHHHhcC--CCCCHH------hHHHHHHHHHhcC-ChHHHHHHHHHHHhC--------CCCcC-----
Q 040580           56 RKKKPHLAHQLVNTVKSEG--LLPDNS------TLCALMLCYANNG-FVLEAQVVWEELLSS--------SFVLS-----  113 (412)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~g--~~p~~~------~~~~ll~~~~~~~-~~~~a~~~~~~m~~~--------~~~~~-----  113 (412)
                      +.|+.+.|..++.+.....  ..|+..      .|+.-... ...+ +++.|...+++..+.        ...|+     
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l-~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSL-LSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHH-HHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            4566666666666655422  122211      22222222 2334 666665555544321        12233     


Q ss_pred             HHHHHHHHHHHHccCCHHH---HHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNE---IISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAF  190 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  190 (412)
                      ..++..++.+|...+..+.   |.++++.+.. ..+-.|.++-.-+..+.+.++.+.+.+++.+|...-.. ....+..+
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~-e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~  161 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLES-EYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHH-hCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHHH
Confidence            2466777777777776554   4445555533 22333556666667777788888888888888776221 23444444


Q ss_pred             HHHH---HhcCCHHHHHHHHHHHHhCCCCCCH
Q 040580          191 IIYY---SRFGSLTEMETAYGRLKRSRHLIDK  219 (412)
Q Consensus       191 i~~~---~~~g~~~~a~~~~~~~~~~~~~~~~  219 (412)
                      +..+   ... ....+...+..+....+.|..
T Consensus       162 l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  162 LHHIKQLAEK-SPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHhh-CcHHHHHHHHHHHHHHhCCCh
Confidence            4444   332 234555666665555445444

It is also involved in sporulation [].

>PRK11906 transcriptional regulator; Provisional

Probab=94.87  E-value=3.2  Score=38.34  Aligned_cols=77  Identities=9%  Similarity=0.035  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      +|.++-+...+.+ +-|......+..+..-.++++.|...|++....+ +-.+.+|...-....-+|+.++|.+.+++.
T Consensus       322 ~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~a  398 (458)
T PRK11906        322 KALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKS  398 (458)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444 3444444444444444445555555555554322 122223333333344445555555555543

>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=94.83  E-value=0.59  Score=37.53  Aligned_cols=63  Identities=19%  Similarity=0.173  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH--hHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE--VYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+...  .+-.+|......+++..+...+.+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            567778888888888888888888887765444332  666777888888888888877776654

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.74  E-value=3.3  Score=37.87  Aligned_cols=144  Identities=9%  Similarity=-0.006  Sum_probs=91.4

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhH-HHHHH
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAG-FHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTY-GCVVD  332 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~li~  332 (412)
                      .+|.+.+..-.+...++.|..+|-+.++.| +.|++..++++|.-++. |+...|.++|+.=..+  -||...| +..+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHHH
Confidence            567778888888888888899999988887 67788888888887776 5667788888653321  2333222 34455


Q ss_pred             HHHhccccchHHHHHHhccCCCCC--CcccHHHHHHHHhc-CCcccHHHHHHHhcc--CchHHHHHHHHHHHHc
Q 040580          333 AYLDKRLGRNLDFGLSKMNLDDSP--VVSTDPYVFEAFGK-GDFHSSSEAFLEFKR--QRKWTYRKLIAVYLKK  401 (412)
Q Consensus       333 ~~~~~~~~~~a~~~~~~m~~~~~p--~~~~~~~li~~~~~-~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~  401 (412)
                      -+.+.++-..|..+|+.--..+.-  -...|..+|..=++ |+...+..+-.+|..  |...+-....+.|.-+
T Consensus       475 fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~ik  548 (660)
T COG5107         475 FLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYAIK  548 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHhhh
Confidence            556677777888888744111111  13457777776666 777766555555544  4444444444555443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.72  E-value=0.79  Score=41.05  Aligned_cols=92  Identities=16%  Similarity=0.017  Sum_probs=51.3

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhc-----CCCC---------CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSE-----GLLP---------DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQV  116 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~-----g~~p---------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  116 (412)
                      -..+.+.|++..|..-|++....     +..+         -...+..|.-++.+.+++..|++.-+..+..+ ++|+..
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            33566788888888888775431     1111         11234444445555556666665555555554 455555


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhc
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      .---..++...|+++.|...|+++.+.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            555555555556666666666655543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.70  E-value=0.57  Score=41.90  Aligned_cols=119  Identities=13%  Similarity=-0.041  Sum_probs=90.1

Q ss_pred             ccccCCCChHHHHHHHHHhhcc------------------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhH
Q 040580           21 SHQTHPKNGDLARKIIRYRKQE------------------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTL   82 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~   82 (412)
                      ..|.+.|++..|...+++...-                  -..++..+.-++.+.+++..|++.-++....+ ++|.-..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            4677899999999888774321                  23356777888899999999999999998875 5688888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHH-HHHHHHHHh
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNE-IISIIDQVS  141 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~  141 (412)
                      -.-..++...|+++.|...|+.+++.. |-|..+-+-|+.+-.+...... ..++|..|-
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            888899999999999999999999964 4455556666665555544443 356676664

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.64  E-value=2.8  Score=36.59  Aligned_cols=159  Identities=17%  Similarity=0.029  Sum_probs=100.6

Q ss_pred             cCCCChHHHHHHHHHhhcc----C--------hhhHHHHHHHHhcCCChhHHHHHHHHHHhc--------CCCCCH----
Q 040580           24 THPKNGDLARKIIRYRKQE----G--------FVDCASLVEDLGRKKKPHLAHQLVNTVKSE--------GLLPDN----   79 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~----~--------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------g~~p~~----   79 (412)
                      .+.|+++.|..++.+....    +        ...||.-...+.+..+++.|...+++..+.        ...|+.    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            4789999999999887642    2        223555555554443888887777665432        233443    


Q ss_pred             -HhHHHHHHHHHhcCChH---HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHH
Q 040580           80 -STLCALMLCYANNGFVL---EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRA  155 (412)
Q Consensus        80 -~~~~~ll~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  155 (412)
                       .++..++.++...+..+   +|.++.+.+.+.. +-...++-.-++.+.+.++.+.+.+++.+|... +......+...
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~~  161 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHHH
Confidence             45667778887777654   4566666665432 223556666778888899999999999999865 33334466666


Q ss_pred             HHHHHh--cCChHHHHHHHHHHHHCCCCCCh
Q 040580          156 ISCFGK--QGQLELMENTLKEMVSRGFSVDS  184 (412)
Q Consensus       156 i~~~~~--~g~~~~a~~~~~~m~~~g~~p~~  184 (412)
                      +..+..  ......+...+..+....+.|..
T Consensus       162 l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  162 LHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            555522  23345667777777665555554

It is also involved in sporulation [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.55  E-value=1  Score=33.56  Aligned_cols=92  Identities=14%  Similarity=0.165  Sum_probs=66.1

Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCChHHHHH---HHHHHHhc
Q 040580          122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR-GFSVDSATGNA---FIIYYSRF  197 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~---li~~~~~~  197 (412)
                      -+.+..|+++.|++.|.+...-- +-.+..||.-..++.-.|+.++|++=+++..+. |-+ +...+.+   -...|-..
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            35677899999999998886543 456778999999999999999998888887664 332 3333332   22345567


Q ss_pred             CCHHHHHHHHHHHHhCCC
Q 040580          198 GSLTEMETAYGRLKRSRH  215 (412)
Q Consensus       198 g~~~~a~~~~~~~~~~~~  215 (412)
                      |+.+.|..=|+..-+.|.
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            888888888888777663

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.47  E-value=0.62  Score=40.06  Aligned_cols=77  Identities=13%  Similarity=0.037  Sum_probs=41.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKR-----SRHLIDKEGIRAV  225 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  225 (412)
                      ++..++..+...|+.+.+...++++...... +...|..+|.+|.+.|+...|...|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4555555555555555555555555554211 445555555555555555555555555543     3555555555555


Q ss_pred             HHH
Q 040580          226 SFT  228 (412)
Q Consensus       226 i~~  228 (412)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>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=94.41  E-value=2  Score=33.91  Aligned_cols=137  Identities=11%  Similarity=0.096  Sum_probs=90.9

Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 040580           64 HQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus        64 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      .+.+..+.+.|++|+...+..++..+.+.|++....    .+++.++-+|.......+-.+..  ....+.++=-+|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            455666677889999999999999999999865544    45566656665555544433332  233344443344332


Q ss_pred             CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          144 NADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       144 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      =-    ..+..++..+...|++-+|+++.+.....    +...-..++.+..+.+|...-..+++.....+
T Consensus        88 L~----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   88 LG----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             hh----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            10    26778888889999999999988775332    22334567888888888887777777776654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.32  E-value=2.7  Score=35.12  Aligned_cols=115  Identities=10%  Similarity=0.054  Sum_probs=65.8

Q ss_pred             CCChHHHHHHHHHHHH---cCC--CCcHhHHHHHHHHHHccCChhHHHHHHHHHH----hCCCCCCH-hhHHHHHHHHHh
Q 040580          267 NFKMKSLQREFMRMSE---AGF--HPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK----HESVGPDL-VTYGCVVDAYLD  336 (412)
Q Consensus       267 ~g~~~~a~~~~~~m~~---~~~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~----~~g~~p~~-~~~~~li~~~~~  336 (412)
                      +.++++|+++|++-..   .+-  +.-...+..+-..+.+...+++|-..+.+-.    +..-.|+. ..|.+.|-.+..
T Consensus       123 nv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~  202 (308)
T KOG1585|consen  123 NVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLY  202 (308)
T ss_pred             cCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhh
Confidence            3456677777666442   110  0111223344445556666665544333211    11122222 345566667777


Q ss_pred             ccccchHHHHHHhc----cCCCCCCcccHHHHHHHHhcCCcccHHHHHH
Q 040580          337 KRLGRNLDFGLSKM----NLDDSPVVSTDPYVFEAFGKGDFHSSSEAFL  381 (412)
Q Consensus       337 ~~~~~~a~~~~~~m----~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~  381 (412)
                      ..++..+++.++.-    ....+-+..+...|+.+|-.|+.+++.+++.
T Consensus       203 ~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~gD~E~~~kvl~  251 (308)
T KOG1585|consen  203 AHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccCCHHHHHHHHc
Confidence            88999999999884    2233345667888999999999988776653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.25  E-value=5.8  Score=38.71  Aligned_cols=157  Identities=11%  Similarity=0.003  Sum_probs=83.3

Q ss_pred             cccccccCCCChHHHHHHHHHhhcc-----------------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHH
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQE-----------------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNS   80 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~~-----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~   80 (412)
                      ++..++.+..++++-..+.+.++-.                 ...+-..+|.-+...+.+..|+++-..+...-..- ..
T Consensus       394 sfGk~~l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~  472 (829)
T KOG2280|consen  394 SFGKASLRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DR  472 (829)
T ss_pred             hhcccccccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cH
Confidence            4444555666666655555544321                 11123345666677777777777776665321111 45


Q ss_pred             hHHHHHHHHHhcCCh---HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC----CCCHHhHH
Q 040580           81 TLCALMLCYANNGFV---LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA----DLLPEVYS  153 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~~  153 (412)
                      .|.....-+.+..+.   +.+..+-+++... . .....|..+.+..-.+|+.+.|..+++.=...+.    -.+-.-+.
T Consensus       473 Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~  550 (829)
T KOG2280|consen  473 VLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSS  550 (829)
T ss_pred             HHHHHHHHHHhccCccchHHHHHHHHHhccc-C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHH
Confidence            555555555555322   2222222222221 2 3345566666666677888888777653322221    11112455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHH
Q 040580          154 RAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       154 ~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ..+.-+...|+.+-...++-++.+
T Consensus       551 ~AL~kaies~d~~Li~~Vllhlk~  574 (829)
T KOG2280|consen  551 LALKKAIESGDTDLIIQVLLHLKN  574 (829)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHH
Confidence            566667777887777777776655

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=94.07  E-value=6.2  Score=38.31  Aligned_cols=73  Identities=11%  Similarity=-0.088  Sum_probs=41.9

Q ss_pred             CCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCC--CCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           26 PKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLL--PDNSTLCALMLCYANNGFVLEAQVVWE  103 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~  103 (412)
                      -|+|++|.+++-.+..+|.     .|....+.|++-+..++++.=- .+..  --...|+.+...++....|++|.+.|.
T Consensus       747 ~g~feeaek~yld~drrDL-----Aielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~  820 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDL-----AIELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYS  820 (1189)
T ss_pred             hcchhHhhhhhhccchhhh-----hHHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4678888888877776654     3555666677766666653311 1100  012356666666666666666666554


Q ss_pred             H
Q 040580          104 E  104 (412)
Q Consensus       104 ~  104 (412)
                      .
T Consensus       821 ~  821 (1189)
T KOG2041|consen  821 Y  821 (1189)
T ss_pred             h
Confidence            3

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.06  E-value=0.17  Score=29.76  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=9.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 040580           85 LMLCYANNGFVLEAQVVWEELLS  107 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~  107 (412)
                      +..++.+.|++++|.++|++.++
T Consensus         7 la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    7 LARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            33334444444444444444433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.99  E-value=0.27  Score=28.83  Aligned_cols=37  Identities=22%  Similarity=0.281  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYS  153 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  153 (412)
                      ++..+...|.+.|++++|.++|++..+.. +-++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~   39 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWR   39 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHH
Confidence            34455555666666666666666655543 33343443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.86  E-value=1.3  Score=37.63  Aligned_cols=27  Identities=7%  Similarity=-0.145  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      ++--|.....+.|+.++|..+|++..+
T Consensus       217 allKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         217 ALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            333444444445555555555555543

>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=93.80  E-value=2.9  Score=33.58  Aligned_cols=63  Identities=14%  Similarity=0.050  Sum_probs=51.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS--ATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      .+..+...|.+.|+.+.|++.|.++.+....|..  ..+-.+|....-.+++..+.....+....
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            7888899999999999999999999887655543  45667888888899999988888776653

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.69  E-value=1.6  Score=37.83  Aligned_cols=50  Identities=14%  Similarity=0.161  Sum_probs=43.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhC
Q 040580          269 KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHE  318 (412)
Q Consensus       269 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  318 (412)
                      ++++++.++..=.+.|+-||.+++..+|+.+.+.+++.+|..+...|..+
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            67788888888888999999999999999999999999988888777653

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.55  E-value=1.1  Score=38.57  Aligned_cols=81  Identities=11%  Similarity=0.169  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCChHHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS-----RGFSVDSATGN  188 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~  188 (412)
                      ..++..++..+...|+.+.+.+.++++.... +.+...|..+|.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            4578889999999999999999999998776 56667999999999999999999999998865     58999888877


Q ss_pred             HHHHHHH
Q 040580          189 AFIIYYS  195 (412)
Q Consensus       189 ~li~~~~  195 (412)
                      .......
T Consensus       232 ~y~~~~~  238 (280)
T COG3629         232 LYEEILR  238 (280)
T ss_pred             HHHHHhc
Confidence            7777644

>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=93.44  E-value=0.028  Score=43.50  Aligned_cols=129  Identities=10%  Similarity=0.071  Sum_probs=81.7

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcc
Q 040580          259 LLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKR  338 (412)
Q Consensus       259 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  338 (412)
                      .++..+.+.+.++.....++.+...+-.-+....+.++..|++.++.++..++++.       .+..-...+++.|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcc
Confidence            46777777888888888888888666555677778888888888777777777662       11123345667777778


Q ss_pred             ccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhccCchHHHHHHHHHHHHcCcc
Q 040580          339 LGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKRQRKWTYRKLIAVYLKKQLR  404 (412)
Q Consensus       339 ~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~  404 (412)
                      .++.+.-++.++.....        .+..+.. +++..|.+.+.+.  +++..|..+++.+...+..
T Consensus        85 l~~~a~~Ly~~~~~~~~--------al~i~~~~~~~~~a~e~~~~~--~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDE--------ALEILHKLKDYEEAIEYAKKV--DDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             SHHHHHHHHHCCTTHTT--------CSSTSSSTHCSCCCTTTGGGC--SSSHHHHHHHHHHCTSTCT
T ss_pred             hHHHHHHHHHHcccHHH--------HHHHHHHHccHHHHHHHHHhc--CcHHHHHHHHHHHHhcCcc
Confidence            77777777777632111        0111222 5666666333322  5688888888888776653

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.35  E-value=2.8  Score=31.98  Aligned_cols=73  Identities=12%  Similarity=0.050  Sum_probs=42.7

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPE---VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSR  196 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  196 (412)
                      ...+.|++++|.+.|+.+..+- +.++.   +--.++.+|.+.+++++|...+++..+....-...-|...+.+++.
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ry-P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRY-PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            3445677777777777776542 22222   4455667777777777777777777665433223445555555543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.25  E-value=1.9  Score=36.57  Aligned_cols=98  Identities=13%  Similarity=0.144  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcC--CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-C-ChHHHHHH
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRN--ADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS-V-DSATGNAF  190 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p-~~~~~~~l  190 (412)
                      ..|+.-+..+ +.|++..|...|....+..  -...+..+-.|..++...|+++.|-.+|..+.+.-.+ | -...+-.|
T Consensus       143 ~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         143 KLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            3566666544 5667888888888877642  1233446777888888888888888888887765221 1 12455566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC
Q 040580          191 IIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       191 i~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      .....+.|+.++|..+|+++.+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            67777888888888888887765

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.25  E-value=3.9  Score=35.93  Aligned_cols=47  Identities=21%  Similarity=0.223  Sum_probs=21.2

Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      |+..+|-..++++++. +|.|...++.--.+|.-.|+.+.....++++
T Consensus       117 g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kI  163 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKI  163 (491)
T ss_pred             ccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHh
Confidence            4444444444444433 2444444444444444444444444444444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.20  E-value=3.4  Score=32.57  Aligned_cols=129  Identities=5%  Similarity=0.084  Sum_probs=68.4

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHH--HHHHhcccH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSA-TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKE-GIRAVS--FTYLKERKF  235 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li--~~~~~~~~~  235 (412)
                      .+.+..++|+.-|.++.+.|...=.+ .---......+.|+...|...|+++-.....|... -...|=  -.+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            44556666666666666655431111 11112223445666777777777666554333322 111121  223456666


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc
Q 040580          236 FMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD  288 (412)
Q Consensus       236 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  288 (412)
                      ++.....+-+...+...-...-..|--+-.+.|++.+|.+.|..+......|.
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~apr  201 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPR  201 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcH
Confidence            66666666554444333334455666666677788888877777765433443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.99  E-value=5.5  Score=34.39  Aligned_cols=120  Identities=8%  Similarity=-0.026  Sum_probs=52.1

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  238 (412)
                      ....|++.+|..+|+........ +...--.+..+|...|+.+.|..++..+...--.........-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34555666666666655543221 22333445555666666666666665554322111111111222223333333333


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHH
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMS  281 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  281 (412)
                      ..+-.+....+.++  ..--.+...+...|+.++|+..+-.+.
T Consensus       223 ~~l~~~~aadPdd~--~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         223 QDLQRRLAADPDDV--EAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             HHHHHHHHhCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33333322222222  344444555555566666655444433

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.54  E-value=0.95  Score=39.12  Aligned_cols=49  Identities=24%  Similarity=0.333  Sum_probs=29.4

Q ss_pred             ChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 040580           59 KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLS  107 (412)
Q Consensus        59 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  107 (412)
                      ++++++.++..=++.|+-||.++++.+|..+.+.+++.+|.++...|..
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            3556666666656666666666666666666666666666665555544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.26  E-value=3  Score=29.55  Aligned_cols=45  Identities=9%  Similarity=0.116  Sum_probs=20.7

Q ss_pred             HHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          133 IISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       133 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ..+-++.+-..++.|+|.+..+.+.+|.+.+++..|.++|+..+.
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            334444444444555555555555555555555555555554443

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 ....

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.15  E-value=1.5  Score=33.40  Aligned_cols=57  Identities=12%  Similarity=0.074  Sum_probs=36.9

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCC--CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGL--LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS  109 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  109 (412)
                      ...+.|++++|.+.|+.+..+-.  +-...+--.|+.++-+.+++++|...+++.++..
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            34466777777777777766421  1123445557777777777777777777777754

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.11  E-value=1.3  Score=30.90  Aligned_cols=30  Identities=20%  Similarity=0.360  Sum_probs=11.5

Q ss_pred             CCCcCHHHHHHHHHHHHccCCHHHHHHHHH
Q 040580          109 SFVLSVQVLSDLMDAYGRIGCFNEIISIID  138 (412)
Q Consensus       109 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  138 (412)
                      ++.|+..+..+.+++|-+.+|+..|.++|+
T Consensus        37 DlVP~P~ii~aaLrAcRRvND~alAVR~lE   66 (103)
T cd00923          37 DLVPEPKVIEAALRACRRVNDFALAVRILE   66 (103)
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            333333333333333333333333333333

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.02  E-value=7  Score=34.43  Aligned_cols=188  Identities=10%  Similarity=-0.048  Sum_probs=121.2

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHH--HH--HHHHHHHhcCCH
Q 040580          125 GRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSAT--GN--AFIIYYSRFGSL  200 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~--~~--~li~~~~~~g~~  200 (412)
                      .-.|++.+|...++++.+. .+.|...+.-.-.+|...|+.+.-...+++.... ..||...  |.  .+.-++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            4567888888888888754 4666668888889999999999999999888654 1233333  32  223344578999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcch---HHHHHHHHHHhcCCChHHHHHHH
Q 040580          201 TEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGN---LLWNLLLLSYAGNFKMKSLQREF  277 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~  277 (412)
                      ++|++.-++..+.+ +.|.....++.+.+--.|+..++.++..+-...-...+.   .-|=.....+...+.++.|+.+|
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 DDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999988887765 457777778888888899999999988864333222111   11222334456668999999999


Q ss_pred             HHHHHcCC-CCcHhH---HHHHHHHHHccCChhHHHHHHHHH
Q 040580          278 MRMSEAGF-HPDLTT---FNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       278 ~~m~~~~~-~p~~~~---~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      ++-.-..+ +-|...   |.-+...-.+...+.+..++-+.+
T Consensus       271 D~ei~k~l~k~Da~a~~~~ld~dgv~~~~d~~~kld~la~~l  312 (491)
T KOG2610|consen  271 DREIWKRLEKDDAVARDVYLDLDGVDLRSDLWRKLDKLADSL  312 (491)
T ss_pred             HHHHHHHhhccchhhhhhhhhhhhHHhHHHHHHHHHhhhhhh
Confidence            87543222 334322   222333344444444444444444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.00  E-value=8.6  Score=34.28  Aligned_cols=54  Identities=6%  Similarity=-0.155  Sum_probs=26.4

Q ss_pred             HHHHhcCCChHHHHHHHHHHH----HcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHH
Q 040580          261 LLSYAGNFKMKSLQREFMRMS----EAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEH  314 (412)
Q Consensus       261 i~~~~~~g~~~~a~~~~~~m~----~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~  314 (412)
                      ..++-..|+..+|.+.-++..    +.|-+|- ....-.+.+.|...|+.+.|+.-|+.
T Consensus       213 aValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  213 AVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            344555565555555554433    2232221 12233455556666776666665544

>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=91.89  E-value=0.13  Score=39.76  Aligned_cols=54  Identities=7%  Similarity=0.076  Sum_probs=27.1

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           50 LVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWE  103 (412)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  103 (412)
                      ++..+.+.+.++.....++.+...+..-+....+.++..|++.++.+....+++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            344444555555555555555544434445555555555555555455544444

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.82  E-value=3.4  Score=29.27  Aligned_cols=60  Identities=15%  Similarity=0.256  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      +..+-++.+...++.|+..+..+.+++|-+.+++..|.++|+-++.+- ......|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            345555666666777777777777777777777777777777776543 222225555543

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 ....

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=91.79  E-value=5.7  Score=35.98  Aligned_cols=260  Identities=10%  Similarity=-0.078  Sum_probs=149.0

Q ss_pred             cccCCCChHHHHHHHHHhhcc---Chh----hHHHHHHHHhcCCChhHHHHHHHHH--Hh--cCCCC-CHHhHHHHHHHH
Q 040580           22 HQTHPKNGDLARKIIRYRKQE---GFV----DCASLVEDLGRKKKPHLAHQLVNTV--KS--EGLLP-DNSTLCALMLCY   89 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~~---~~~----~~~~li~~~~~~~~~~~a~~~~~~m--~~--~g~~p-~~~~~~~ll~~~   89 (412)
                      -+++.|+......+|+...+-   |..    .|..|-.+|.-.+++++|++.-..=  ..  .|-+. ...+...|.+.+
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            478999999999999988764   322    3556666666677888887653221  10  11000 111222233333


Q ss_pred             HhcCChHHHHHHHHH----HHhCCC-CcCHHHHHHHHHHHHccCC--------------------HHHHHHHHHHHhh--
Q 040580           90 ANNGFVLEAQVVWEE----LLSSSF-VLSVQVLSDLMDAYGRIGC--------------------FNEIISIIDQVSC--  142 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~----m~~~~~-~~~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~--  142 (412)
                      --.|.+++|.-.-.+    ..+.|- ......+..|...|...|+                    ++.|.++|.+=.+  
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555432211    122221 1123345556666655442                    2334444442211  


Q ss_pred             --cCCC-CCHHhHHHHHHHHHhcCChHHHHHHHHHHH----HCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHH---
Q 040580          143 --RNAD-LLPEVYSRAISCFGKQGQLELMENTLKEMV----SRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLK---  211 (412)
Q Consensus       143 --~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~----~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~---  211 (412)
                        .|-. .--..|..|-+.|.-.|+++.|+...+.-.    +-|-+. ....++.+-+++.-.|+++.|.+.|..-.   
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence              1100 001267777777777899999987765432    222211 34567788889999999999998886643   


Q ss_pred             -hCCCC-CCHHHHHHHHHHHHhcccHHHHHHHHHHH-----hcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHH
Q 040580          212 -RSRHL-IDKEGIRAVSFTYLKERKFFMLGEFLRDV-----GLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMS  281 (412)
Q Consensus       212 -~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  281 (412)
                       +.|-+ ....+.-+|...|.-..++++|+..+.+-     .....--...++-+|..+|...|..++|+...+.-.
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence             33322 34456777888888888888888877652     001111123678889999999999999987766544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=91.57  E-value=7.9  Score=36.09  Aligned_cols=60  Identities=12%  Similarity=0.101  Sum_probs=35.4

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          118 SDLMDAYGRIGCFNEIISIIDQVSCRNADL-LPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       118 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ..|..++-+.|+.++|.+.|++|.+..-.. .-.+...|+.++...+.+.++..++.+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            345555556677777777777765432111 122555667777777777777777766643

The molecular function of this protein is uncertain.

>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=91.43  E-value=5.6  Score=31.02  Aligned_cols=108  Identities=10%  Similarity=-0.113  Sum_probs=50.4

Q ss_pred             cccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHH
Q 040580          232 ERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLS  311 (412)
Q Consensus       232 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~  311 (412)
                      .++.+++..++..+..-.|.. ...-..-...+...|++.+|+++|+++.+.  .|....-..|+..|.....-..=...
T Consensus        23 ~~~~~D~e~lL~ALrvLRP~~-~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~~D~~Wr~~   99 (160)
T PF09613_consen   23 LGDPDDAEALLDALRVLRPEF-PELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYALGDPSWRRY   99 (160)
T ss_pred             cCChHHHHHHHHHHHHhCCCc-hHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHcCChHHHHH
Confidence            455566666666554444432 112222234456677888888888887654  23332233333333332222122222


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhccccchHHH
Q 040580          312 LEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDF  345 (412)
Q Consensus       312 ~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~  345 (412)
                      -+++.+.+-.|+.   ..+++.+....+...+..
T Consensus       100 A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen  100 ADEVLESGADPDA---RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHhcCCChHH---HHHHHHHHHhccccchhh
Confidence            2334444444433   235555555555544444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.37  E-value=6  Score=31.25  Aligned_cols=133  Identities=9%  Similarity=0.149  Sum_probs=66.5

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHH-HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHH---
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQ-VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYS---  153 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~---  153 (412)
                      +...|...+. +++.++.++|+.-|..+.+.|...-.. .---......+.|+-..|...|.++-...  +.|....   
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt--~~P~~~rd~A  134 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADT--SIPQIGRDLA  134 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccC--CCcchhhHHH
Confidence            3444554444 355666667777777776655332211 11222334455666666666666664332  2222221   


Q ss_pred             HH--HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          154 RA--ISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       154 ~l--i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      -|  .-.+..+|.++.+..-.+.+-..|-..-...-..|--+-.+.|++..|.+.|.++...
T Consensus       135 Rlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         135 RLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            11  1123455666666555555544433323333444555555666666666666666543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.36  E-value=4.8  Score=30.10  Aligned_cols=52  Identities=13%  Similarity=0.065  Sum_probs=25.0

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      ++..|+.+.|++.|.+.+..- +.+...||.-..++--.|+.++|++=+++..
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~Al  104 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKAL  104 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHH
Confidence            344455555555555444431 3344455555555555555555554444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=91.30  E-value=7.2  Score=32.00  Aligned_cols=201  Identities=14%  Similarity=0.035  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhc-CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCR-NADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                      ...+......+...+++..+...+...... ........+......+...+++..+...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            344444555555555555555555544331 1122223444444444455555555555555544322221 11111111


Q ss_pred             -HHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCC
Q 040580          193 -YYSRFGSLTEMETAYGRLKRSRH--LIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFK  269 (412)
Q Consensus       193 -~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  269 (412)
                       .+...|+++.+...+........  ......+......+...++.+++...+..............+..+...+...++
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence             45555556665555555533111  011222222222233444455555444443222222112445555555555556


Q ss_pred             hHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          270 MKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       270 ~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      .+.+...+......  .|+ ...+..+...+...+..+.+...+.....
T Consensus       218 ~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         218 YEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666555543  222 22233333333344445555555554433

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.21  E-value=9.2  Score=33.06  Aligned_cols=116  Identities=9%  Similarity=0.009  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHhh-cCCCCCHHhHHHHHHHHHh-cC-ChHHHHHHHHHHHH-CCCCCChHHHHHHHHHHHhcCCHHHHH
Q 040580          129 CFNEIISIIDQVSC-RNADLLPEVYSRAISCFGK-QG-QLELMENTLKEMVS-RGFSVDSATGNAFIIYYSRFGSLTEME  204 (412)
Q Consensus       129 ~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~-~g-~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~a~  204 (412)
                      .+.+|+++|+.... ..+..|+.+...+++.... .+ ....-.++.+-+.. .|-.++..+...++..+++.+++..-.
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            34556666663221 2344556666666666654 11 22222333333332 234556666666777777777777776


Q ss_pred             HHHHHHHhC-CCCCCHHHHHHHHHHHHhcccHHHHHHHHHH
Q 040580          205 TAYGRLKRS-RHLIDKEGIRAVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       205 ~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  244 (412)
                      ++++..... +...|...|..+|......|+..-+..++++
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            666665443 3344555555555555555555544444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.89  E-value=0.77  Score=32.04  Aligned_cols=46  Identities=20%  Similarity=0.140  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHH
Q 040580          271 KSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       271 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                      -++.+-++.+....+.|+.....+.++||.+.+++..|.++++-.+
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444444444455555555555555555555555555555443

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.75  E-value=9  Score=32.18  Aligned_cols=53  Identities=9%  Similarity=0.086  Sum_probs=25.9

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHccCChhHHHH
Q 040580          257 WNLLLLSYAGNFKMKSLQREFMRMSEAG---FHPDLTTFNIRAVAFSRMSMFWDLHL  310 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~g~~~~a~~  310 (412)
                      |-..|-.|.-..++..|...++.-.+.+   -.-+..+...||.+|-. |+.+++..
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~-gD~E~~~k  248 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDE-GDIEEIKK  248 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhcc-CCHHHHHH
Confidence            4444445555556666666666533221   01234455556665543 44544443

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

Probab=90.69  E-value=0.67  Score=25.74  Aligned_cols=22  Identities=23%  Similarity=0.153  Sum_probs=9.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHH
Q 040580           83 CALMLCYANNGFVLEAQVVWEE  104 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~  104 (412)
                      +.|...|.+.|++++|.++|++
T Consensus         3 ~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    3 NNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444444444444444

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

Probab=90.68  E-value=0.61  Score=25.89  Aligned_cols=23  Identities=26%  Similarity=0.449  Sum_probs=12.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHH
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQ  139 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~  139 (412)
                      |+.|...|.+.|++++|.++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555555555555555555555

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=90.44  E-value=8.7  Score=31.48  Aligned_cols=225  Identities=14%  Similarity=0.011  Sum_probs=146.1

Q ss_pred             CCChhHHHHHHHHHHhcCCC-CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCcCHHHHHHHHHHHHccCCHHHHH
Q 040580           57 KKKPHLAHQLVNTVKSEGLL-PDNSTLCALMLCYANNGFVLEAQVVWEELLSS-SFVLSVQVLSDLMDAYGRIGCFNEII  134 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~  134 (412)
                      .+....+...+......... .....+......+...+++..+...+...... ........+..+...+...++...+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34455566666665554322 13566777777788888888888887777652 23555667777777777788888888


Q ss_pred             HHHHHHhhcCCCCCHHhHHHHHH-HHHhcCChHHHHHHHHHHHHCCC--CCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          135 SIIDQVSCRNADLLPEVYSRAIS-CFGKQGQLELMENTLKEMVSRGF--SVDSATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       135 ~~~~~m~~~~~~~~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      +.+.........+ ......... .+...|+++.+...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8888876543222 122333333 67888888888888888855221  1123334444444667788888888888887


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          212 RSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       212 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      ..........+..+...+...++++++...+.......+. ....+..+...+...+..+.+...+.+....
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6542224667777778888888888888888876554443 1234444444444667788888888887754

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=90.39  E-value=10  Score=32.14  Aligned_cols=59  Identities=8%  Similarity=0.009  Sum_probs=39.8

Q ss_pred             HHHHHHHccCChhHHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhccccchHHHHHHhccC
Q 040580          294 IRAVAFSRMSMFWDLHLSLEHMKHE--SVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNL  352 (412)
Q Consensus       294 ~ll~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  352 (412)
                      .+.+-|.+.|.+..|..-+++|.+.  .-.-....+-.+..+|.+.|-.++|.+.-+-+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            3555678888888888888888765  1112234555667778888888888777766643

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=90.00  E-value=0.41  Score=26.25  Aligned_cols=23  Identities=17%  Similarity=0.283  Sum_probs=11.6

Q ss_pred             CcCHHHHHHHHHHHHccCCHHHH
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEI  133 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a  133 (412)
                      |-|...|+.+...|...|++++|
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhh
Confidence            33445555555555555555544

>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=89.98  E-value=0.97  Score=36.59  Aligned_cols=76  Identities=9%  Similarity=0.029  Sum_probs=53.0

Q ss_pred             HhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhcCCcccHHHHHHHhcc-------CchHHHHHHHHHHHHcCcccc
Q 040580          335 LDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKR-------QRKWTYRKLIAVYLKKQLRRN  406 (412)
Q Consensus       335 ~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~l~~~~~~~g~~~~  406 (412)
                      .+.|+- .|.+.|-.+ ..+.--+...--.|-..|.+.+..++..++.+...       .|+..+.+|.+.|.+.|+++.
T Consensus       118 sr~~d~-~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  118 SRFGDQ-EALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             hccCcH-HHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            344544 566666666 33333344444445555677888888888776432       689999999999999999999


Q ss_pred             ccccc
Q 040580          407 QIFWN  411 (412)
Q Consensus       407 a~~w~  411 (412)
                      |.+|-
T Consensus       197 AYiwa  201 (203)
T PF11207_consen  197 AYIWA  201 (203)
T ss_pred             hhhhe
Confidence            99994

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=89.87  E-value=15  Score=33.40  Aligned_cols=172  Identities=8%  Similarity=-0.001  Sum_probs=90.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH---H-----
Q 040580          157 SCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY--SRFGSLTEMETAYGRLKRSRHLIDKEGIRAV---S-----  226 (412)
Q Consensus       157 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l---i-----  226 (412)
                      .++...|+.++|.++--...+..  + ...+...+++.  --.++.+.+...|++-.+.+  |+...-...   .     
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld--~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLD--A-TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcc--c-chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHH
Confidence            44556777887777666655531  1 22333344332  24566777777777766543  333221111   1     


Q ss_pred             -----HHHHhcccHHHHHHHHHHHh---cCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHH
Q 040580          227 -----FTYLKERKFFMLGEFLRDVG---LGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAV  297 (412)
Q Consensus       227 -----~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~  297 (412)
                           .-..+.|.+.+|.+.+.+.-   .....++...|-.......+.|+..+|+.--++....  .|. ...|-.-..
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~  329 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRAN  329 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHH
Confidence                 12345677888888877632   2233345566666677777788888887766665532  111 112222222


Q ss_pred             HHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHHH
Q 040580          298 AFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAYL  335 (412)
Q Consensus       298 ~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~  335 (412)
                      ++.-.++|++|.+-++...+..-.+ ...++.....++-
T Consensus       330 c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLk  368 (486)
T KOG0550|consen  330 CHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALK  368 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence            3444566777777776655432222 2344444444443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.79  E-value=0.61  Score=25.57  Aligned_cols=28  Identities=21%  Similarity=0.373  Sum_probs=24.8

Q ss_pred             HHhccCchHHHHHHHHHHHHcCcccccc
Q 040580          381 LEFKRQRKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       381 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                      -+..|.|+..|..++..|...|++++|+
T Consensus         6 ie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    6 IELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            4567789999999999999999999884

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.76  E-value=13  Score=37.08  Aligned_cols=190  Identities=6%  Similarity=0.034  Sum_probs=115.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH----HHHhcccHHHHHHHHHH-HhcCCCCcchHHHHHH
Q 040580          186 TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSF----TYLKERKFFMLGEFLRD-VGLGRKDLGNLLWNLL  260 (412)
Q Consensus       186 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~----~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l  260 (412)
                      +...-+....+...++.|..+-+.   .+  .+..+...+..    -+.+.|++++|...+-+ ++...+       ..+
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~---~~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~-------s~V  403 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKS---QH--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEP-------SEV  403 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHh---cC--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCCh-------HHH
Confidence            345567777777778877776544   23  23344444444    34457888888876654 332222       345


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcccc
Q 040580          261 LLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLG  340 (412)
Q Consensus       261 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  340 (412)
                      |.-|....+...-...++.+.+.|+. +...-+.|+.+|.+.++.++..++.+... .|...  .-....+..+.+.+-.
T Consensus       404 i~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~--fd~e~al~Ilr~snyl  479 (933)
T KOG2114|consen  404 IKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWF--FDVETALEILRKSNYL  479 (933)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Cccee--eeHHHHHHHHHHhChH
Confidence            66777777777777888888888754 45555678888999888888777766533 33321  1234456666666666


Q ss_pred             chHHHHHHhccCCCCCCcccHHHHHHH-Hhc-CCcccHHHHHHHhccCc-hHHHHHHHHHHH
Q 040580          341 RNLDFGLSKMNLDDSPVVSTDPYVFEA-FGK-GDFHSSSEAFLEFKRQR-KWTYRKLIAVYL  399 (412)
Q Consensus       341 ~~a~~~~~~m~~~~~p~~~~~~~li~~-~~~-~~~~~a~~~~~~~~~~~-~~~~~~l~~~~~  399 (412)
                      ++|..+-......  +     . ++.. +-. +++.+|.+.+..+.+++ ..+.+..+..+.
T Consensus       480 ~~a~~LA~k~~~h--e-----~-vl~ille~~~ny~eAl~yi~slp~~e~l~~l~kyGk~Ll  533 (933)
T KOG2114|consen  480 DEAELLATKFKKH--E-----W-VLDILLEDLHNYEEALRYISSLPISELLRTLNKYGKILL  533 (933)
T ss_pred             HHHHHHHHHhccC--H-----H-HHHHHHHHhcCHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Confidence            6666655554321  1     1 2222 333 88999999988887744 333444444443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.72  E-value=3.7  Score=38.96  Aligned_cols=151  Identities=13%  Similarity=-0.024  Sum_probs=94.3

Q ss_pred             cCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           24 THPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWE  103 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  103 (412)
                      .-.|+++.|..++..++++.   -+.+.+.+.+.|-.++|+++-         +|+.--   .....+.|+++.|.++..
T Consensus       597 vmrrd~~~a~~vLp~I~k~~---rt~va~Fle~~g~~e~AL~~s---------~D~d~r---Felal~lgrl~iA~~la~  661 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPKEI---RTKVAHFLESQGMKEQALELS---------TDPDQR---FELALKLGRLDIAFDLAV  661 (794)
T ss_pred             hhhccccccccccccCchhh---hhhHHhHhhhccchHhhhhcC---------CChhhh---hhhhhhcCcHHHHHHHHH
Confidence            34678888888777776433   355666777777777776543         222211   122346677777776654


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 040580          104 ELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD  183 (412)
Q Consensus       104 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  183 (412)
                      +..      +..-|..|.++..+.+++..|.+.|.....         |..|+-.+...|+-+....+-....+.|.. +
T Consensus       662 e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~-N  725 (794)
T KOG0276|consen  662 EAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN-N  725 (794)
T ss_pred             hhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhccc-c
Confidence            432      455688888888888888888888876642         455666666777776665555556665532 2


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          184 SATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       184 ~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                           ...-++...|+++++.+++..-
T Consensus       726 -----~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  726 -----LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             -----hHHHHHHHcCCHHHHHHHHHhc
Confidence                 2233455677888777766443

>PRK11906 transcriptional regulator; Provisional

Probab=89.57  E-value=18  Score=33.69  Aligned_cols=142  Identities=13%  Similarity=-0.057  Sum_probs=92.4

Q ss_pred             ChHHHHHHHHHhh---ccC---hhhHHHHHHHHh---------cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           28 NGDLARKIIRYRK---QEG---FVDCASLVEDLG---------RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        28 ~~~~A~~~~~~~~---~~~---~~~~~~li~~~~---------~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      ..+.|..+|.+..   +-|   ...|..+..++.         ......+|.++-+...+.+ +-|+.....+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            3557888898877   433   333333322221         1234566777777777765 45788888888888888


Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH---hHHHHHHHHHhcCChHHHH
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE---VYSRAISCFGKQGQLELME  169 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g~~~~a~  169 (412)
                      ++.+.+..+|++....+ +-...+|....-.+.-+|+.++|.+.+++..+.+  |...   ..-..+..|+..+ .+.|+
T Consensus       352 ~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLs--P~~~~~~~~~~~~~~~~~~~-~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQLE--PRRRKAVVIKECVDMYVPNP-LKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC--chhhHHHHHHHHHHHHcCCc-hhhhH
Confidence            99999999999999865 3345666666666677899999999999864432  2221   2333344666543 56666


Q ss_pred             HHHHH
Q 040580          170 NTLKE  174 (412)
Q Consensus       170 ~~~~~  174 (412)
                      .++-+
T Consensus       428 ~~~~~  432 (458)
T PRK11906        428 KLYYK  432 (458)
T ss_pred             HHHhh
Confidence            66543

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=89.21  E-value=8.4  Score=29.55  Aligned_cols=81  Identities=10%  Similarity=0.030  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCC---C--CCChHHHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRG---F--SVDSATGNAFIIYYSRFGS-LTEMETAYGRLKRSRHLIDKEGIRA  224 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~--~p~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~  224 (412)
                      ..|.++......+++...+.+++.+..-.   +  ..+...|.+++.+.++..- --.+..+|..|++.+.++++.-|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            34445555555555555555555542210   0  1234456666666655544 3345566666666666666666666


Q ss_pred             HHHHHHh
Q 040580          225 VSFTYLK  231 (412)
Q Consensus       225 li~~~~~  231 (412)
                      +|.++.+
T Consensus       121 li~~~l~  127 (145)
T PF13762_consen  121 LIKAALR  127 (145)
T ss_pred             HHHHHHc
Confidence            6666554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=88.18  E-value=15  Score=31.14  Aligned_cols=53  Identities=15%  Similarity=0.046  Sum_probs=28.7

Q ss_pred             hcCCChhHHHHHHHHHHhcCC--CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 040580           55 GRKKKPHLAHQLVNTVKSEGL--LPDNSTLCALMLCYANNGFVLEAQVVWEELLS  107 (412)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  107 (412)
                      .+.|++++|.+.|+.+..+..  +-...+.-.++.++-+.++++.|....++..+
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~   99 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIR   99 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            355666666666666654321  11233444455555566666666666666555

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.64  E-value=17  Score=31.08  Aligned_cols=121  Identities=13%  Similarity=0.169  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHH-HcCCCCcHhHHHHHHHH-----HHccCChhHHHH-HHHHHHh---CCCCCCH
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMS-EAGFHPDLTTFNIRAVA-----FSRMSMFWDLHL-SLEHMKH---ESVGPDL  324 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~p~~~~~~~ll~~-----~~~~g~~~~a~~-~~~~m~~---~g~~p~~  324 (412)
                      ..|..=|..|....+-.+...++++.. -....|.+.... +|+-     ..+.|++++|.. +|+..+.   .| .|..
T Consensus       192 EiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsG-spRR  269 (440)
T KOG1464|consen  192 EIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESG-SPRR  269 (440)
T ss_pred             hhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccC-Ccch
Confidence            456666777777777666666776654 223345544443 2332     345666766653 3333332   23 2332


Q ss_pred             hh---HHHHHHHHHhccccchHHHHHHh--c-cCCCCCCcccHHHHHHHHhcCCcccHHHHHHH
Q 040580          325 VT---YGCVVDAYLDKRLGRNLDFGLSK--M-NLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLE  382 (412)
Q Consensus       325 ~~---~~~li~~~~~~~~~~~a~~~~~~--m-~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~  382 (412)
                      .|   |-.|...+.+.|--.     |+.  . .....|.....+.++.+|.+.+..+-.+++..
T Consensus       270 ttCLKYLVLANMLmkS~iNP-----FDsQEAKPyKNdPEIlAMTnlv~aYQ~NdI~eFE~Il~~  328 (440)
T KOG1464|consen  270 TTCLKYLVLANMLMKSGINP-----FDSQEAKPYKNDPEILAMTNLVAAYQNNDIIEFERILKS  328 (440)
T ss_pred             hHHHHHHHHHHHHHHcCCCC-----CcccccCCCCCCHHHHHHHHHHHHHhcccHHHHHHHHHh
Confidence            22   223333343333110     111  1 22334555556677777777777666665554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=87.34  E-value=23  Score=32.33  Aligned_cols=151  Identities=14%  Similarity=-0.011  Sum_probs=97.1

Q ss_pred             cccCCCChHHHHHHHHHhhccCh-hhHHHHHHHHh--cCCChhHHHHHHHHHHhcCCCCCHHhHHHH-------------
Q 040580           22 HQTHPKNGDLARKIIRYRKQEGF-VDCASLVEDLG--RKKKPHLAHQLVNTVKSEGLLPDNSTLCAL-------------   85 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~li~~~~--~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-------------   85 (412)
                      ++.-.|+.++|.+.--.+.+-|. ..+...++..+  -.++.+.|+.-|++....  .|+...-..+             
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~  255 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKER  255 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcccchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhh
Confidence            45566777777777666555433 33444444332  356778888888877764  3444322221             


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCC---CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH---hHHHHHHHH
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSS---FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE---VYSRAISCF  159 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~  159 (412)
                      ..-..+.|++..|.+.|.+.+..+   ..|++..|-....+..+.|+..+|+.--++...    +|+.   .|-.-..++
T Consensus       256 gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~----iD~syikall~ra~c~  331 (486)
T KOG0550|consen  256 GNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK----IDSSYIKALLRRANCH  331 (486)
T ss_pred             hhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh----cCHHHHHHHHHHHHHH
Confidence            123356788999999998888743   456677788888888888999988887776643    3343   222333455


Q ss_pred             HhcCChHHHHHHHHHHHHC
Q 040580          160 GKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~  178 (412)
                      ...++|++|.+-|+...+.
T Consensus       332 l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            5668888888888877664

>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=87.28  E-value=7.6  Score=31.62  Aligned_cols=79  Identities=15%  Similarity=0.109  Sum_probs=61.8

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCCCHHhHHHHHHHHHhcCCh
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR---NADLLPEVYSRAISCFGKQGQL  165 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~g~~  165 (412)
                      ..+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++.+++....+.   +-.++|+.+..|.+.+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            445555 678888888888876677888888888777 56888898888876543   3367899999999999999999


Q ss_pred             HHHH
Q 040580          166 ELME  169 (412)
Q Consensus       166 ~~a~  169 (412)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            9875

>PRK09687 putative lyase; Provisional

Probab=87.03  E-value=20  Score=31.32  Aligned_cols=182  Identities=10%  Similarity=-0.043  Sum_probs=80.2

Q ss_pred             HhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh----HHHHHHHHHHHhCCCCcC
Q 040580           38 YRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV----LEAQVVWEELLSSSFVLS  113 (412)
Q Consensus        38 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~----~~a~~~~~~m~~~~~~~~  113 (412)
                      .+..+|.......+.++...|. +++...+..+...   +|...=...+.++++.|+.    +++...+..+...  .|+
T Consensus        31 ~L~d~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d  104 (280)
T PRK09687         31 LLDDHNSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKS  104 (280)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCC
Confidence            3344555566666666666654 3344444444332   3444444455555555543    3455555544322  345


Q ss_pred             HHHHHHHHHHHHccCCH-----HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHH
Q 040580          114 VQVLSDLMDAYGRIGCF-----NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGN  188 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~-----~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  188 (412)
                      ..+-...+.+++..+..     ..+...+....   ..+++.+--..+.++++.++ +.++..+-.+.+.   +|...-.
T Consensus       105 ~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~---~D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~  177 (280)
T PRK09687        105 ACVRASAINATGHRCKKNPLYSPKIVEQSQITA---FDKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRN  177 (280)
T ss_pred             HHHHHHHHHHHhcccccccccchHHHHHHHHHh---hCCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHH
Confidence            55555555555444321     11222222221   12233444455555555554 3344444444442   3333444


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccH
Q 040580          189 AFIIYYSRFG-SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKF  235 (412)
Q Consensus       189 ~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  235 (412)
                      ..+.++++.+ +.+.+...+..+..   .++..+-...+.++++.++.
T Consensus       178 ~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~  222 (280)
T PRK09687        178 WAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK  222 (280)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh
Confidence            4444444432 12234444333332   23444555555555555543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=86.70  E-value=28  Score=32.69  Aligned_cols=57  Identities=11%  Similarity=0.072  Sum_probs=35.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          189 AFIIYYSRFGSLTEMETAYGRLKRSRHL-IDKEGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       189 ~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      .+..++-+.|+.++|.+.+++|.+.... -...+...|+.++...+.+.++..++.+-
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            3444555667777777777777654322 23345666777777777777777776664

The molecular function of this protein is uncertain.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.44  E-value=20  Score=30.68  Aligned_cols=235  Identities=13%  Similarity=0.053  Sum_probs=142.2

Q ss_pred             CCCChHHHHHHHHHhhcc-------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhc---CC--CCCHHhHHHHHHHHHhc
Q 040580           25 HPKNGDLARKIIRYRKQE-------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSE---GL--LPDNSTLCALMLCYANN   92 (412)
Q Consensus        25 ~~~~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~--~p~~~~~~~ll~~~~~~   92 (412)
                      +...+++|+.-|++..+-       ...+...+|....+.+++++....+.+|...   .+  .-+..+.|+++.-.+.+
T Consensus        39 ~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   39 KEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             cccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            344788999999887642       4455667888899999999999999888531   12  23456778888877777


Q ss_pred             CChHHHHHHHHHHHhC-----CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-----------CCCHHhHHHHH
Q 040580           93 GFVLEAQVVWEELLSS-----SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-----------DLLPEVYSRAI  156 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~-----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------~~~~~~~~~li  156 (412)
                      .+.+....+|+.-++.     +-..--.|=..|...|...+++....+++.++.++..           ..-...|..=|
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            7777777776654321     1111122335677888888888888888888864321           11123788888


Q ss_pred             HHHHhcCChHHHHHHHHHHHHC-CCCCChHHHHHHHHHH-----HhcCCHHHHHH-HHHHHH---hCCCCCCH--HHHHH
Q 040580          157 SCFGKQGQLELMENTLKEMVSR-GFSVDSATGNAFIIYY-----SRFGSLTEMET-AYGRLK---RSRHLIDK--EGIRA  224 (412)
Q Consensus       157 ~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~-----~~~g~~~~a~~-~~~~~~---~~~~~~~~--~~~~~  224 (412)
                      +.|....+-.+...++++...- ...|.+.... +|+-|     .+.|++++|.. +|+...   ++|.+-..  --|-.
T Consensus       199 QmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLV  277 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLV  277 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHH
Confidence            9999888888888888876432 2234443333 44444     35677777653 333333   34432222  22444


Q ss_pred             HHHHHHhccc----HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC
Q 040580          225 VSFTYLKERK----FFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN  267 (412)
Q Consensus       225 li~~~~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  267 (412)
                      |...+.++|-    -.+|       ..-..+|...+.+.|+.+|-.+
T Consensus       278 LANMLmkS~iNPFDsQEA-------KPyKNdPEIlAMTnlv~aYQ~N  317 (440)
T KOG1464|consen  278 LANMLMKSGINPFDSQEA-------KPYKNDPEILAMTNLVAAYQNN  317 (440)
T ss_pred             HHHHHHHcCCCCCccccc-------CCCCCCHHHHHHHHHHHHHhcc
Confidence            4555555431    1111       1112234456777788877554

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.07  E-value=22  Score=30.84  Aligned_cols=40  Identities=23%  Similarity=0.189  Sum_probs=27.9

Q ss_pred             HHHHHHHHHhhcc--ChhhHHHHHHHHhcCCChhHHHHHHHH
Q 040580           30 DLARKIIRYRKQE--GFVDCASLVEDLGRKKKPHLAHQLVNT   69 (412)
Q Consensus        30 ~~A~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~   69 (412)
                      .+|+++|--+.+.  -.++-+.++..+-...+..+|...|..
T Consensus       150 ~KA~ELFayLv~hkgk~v~~~~~ie~lwpe~D~kka~s~lhT  191 (361)
T COG3947         150 RKALELFAYLVEHKGKEVTSWEAIEALWPEKDEKKASSLLHT  191 (361)
T ss_pred             hHHHHHHHHHHHhcCCcccHhHHHHHHccccchhhHHHHHHH
Confidence            4778888777654  355566777778777777777766654

>PRK09687 putative lyase; Provisional

Probab=85.84  E-value=23  Score=30.92  Aligned_cols=197  Identities=9%  Similarity=-0.098  Sum_probs=114.9

Q ss_pred             ccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCCh----hHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh-
Q 040580           21 SHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKP----HLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV-   95 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~-   95 (412)
                      ..+.+.|..+....+..-...+|...-...+.++++.|+.    .++..++..+...  .|+...-...+.++...+.. 
T Consensus        45 ~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~aLG~~~~~~  122 (280)
T PRK09687         45 RVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAINATGHRCKKN  122 (280)
T ss_pred             HHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHHHHhcccccc
Confidence            3344444433333333323345666666777788888764    4677777776443  45666666666666655421 


Q ss_pred             ----HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC-ChHHHHH
Q 040580           96 ----LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG-QLELMEN  170 (412)
Q Consensus        96 ----~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~  170 (412)
                          ..+...+.....   .++..+-...+.++++.++. .+...+-.+..   .+++.+-...+.++.+.+ +...+..
T Consensus       123 ~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~  195 (280)
T PRK09687        123 PLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIRE  195 (280)
T ss_pred             cccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHH
Confidence                223333333332   45677777888888888875 45555555543   355566667777777653 2456667


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccH
Q 040580          171 TLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKF  235 (412)
Q Consensus       171 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  235 (412)
                      .+..+..   .++..+-...+.++++.|+.. +...+-...+.+   +  .....+.+++..|+.
T Consensus       196 ~L~~~L~---D~~~~VR~~A~~aLg~~~~~~-av~~Li~~L~~~---~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        196 AFVAMLQ---DKNEEIRIEAIIGLALRKDKR-VLSVLIKELKKG---T--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHHHhc---CCChHHHHHHHHHHHccCChh-HHHHHHHHHcCC---c--hHHHHHHHHHhcCCH
Confidence            7766664   357777888889999998854 444444444433   2  223445555555543

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

Probab=85.68  E-value=2.3  Score=22.92  Aligned_cols=24  Identities=21%  Similarity=0.398  Sum_probs=9.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHH
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      |..+..+|...|++++|...|++.
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHH
Confidence            334444444444444444444443

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 ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.64  E-value=2.2  Score=24.21  Aligned_cols=25  Identities=24%  Similarity=0.610  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      +++.|...|...|++++|.+++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            4445555555555555555555444

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

Probab=85.28  E-value=2.9  Score=22.51  Aligned_cols=29  Identities=14%  Similarity=-0.058  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      .+|..+...|...|++++|+..|++..+.
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            35666666677777777777777666643

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 ....

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.16  E-value=28  Score=31.32  Aligned_cols=63  Identities=8%  Similarity=-0.114  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC---cHhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP---DLTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      .+|..+...+-+.|+++.|...+.++...+..+   .....-.-....-..|+..+|...+++..+
T Consensus       147 ~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  147 ETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456666666666666666666666655432111   122222334444555666666666655544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.80  E-value=16  Score=28.10  Aligned_cols=79  Identities=10%  Similarity=0.057  Sum_probs=33.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCC-----CcCHHHHHHHHHHHHccCC-HHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSF-----VLSVQVLSDLMDAYGRIGC-FNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      |.++.-.+..++.....++++.+.....     ..+..+|++++++.++..- ---+..+|.-|++.+..+++.-|..+|
T Consensus        43 N~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li  122 (145)
T PF13762_consen   43 NCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLI  122 (145)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            4444444444455555444444422100     1223344444444433333 222344444444444444444444444


Q ss_pred             HHHHh
Q 040580          157 SCFGK  161 (412)
Q Consensus       157 ~~~~~  161 (412)
                      .++.+
T Consensus       123 ~~~l~  127 (145)
T PF13762_consen  123 KAALR  127 (145)
T ss_pred             HHHHc
Confidence            44443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.62  E-value=2.8  Score=23.73  Aligned_cols=29  Identities=34%  Similarity=0.302  Sum_probs=22.0

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLS  107 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  107 (412)
                      ..+++.|...|...|++++|..++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35677888888888888888888887764

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=84.44  E-value=26  Score=30.37  Aligned_cols=117  Identities=7%  Similarity=-0.019  Sum_probs=78.0

Q ss_pred             CChHHHHHHHHHHHH-CCCCCChHHHHHHHHHHHh-cC-CHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcccHHHH
Q 040580          163 GQLELMENTLKEMVS-RGFSVDSATGNAFIIYYSR-FG-SLTEMETAYGRLKRS-RHLIDKEGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       163 g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~-~g-~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a  238 (412)
                      ..+.+|+++|+.... ..+--|..+...+++.... .+ ....-.++.+.+... |-.++..+...++..+++.+++.+.
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            345667777764322 2344577788888887765 22 333334444444433 4567788888888999999999988


Q ss_pred             HHHHHHHhcC-CCCcchHHHHHHHHHHhcCCChHHHHHHHHH
Q 040580          239 GEFLRDVGLG-RKDLGNLLWNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       239 ~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                      .+++...... .+..|...|..+|..-...|+..-...+..+
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            8888875443 4555668888888888888887666555443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=84.05  E-value=17  Score=31.19  Aligned_cols=88  Identities=11%  Similarity=0.039  Sum_probs=52.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---
Q 040580          155 AISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLK---  231 (412)
Q Consensus       155 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~---  231 (412)
                      =|++++..++|.+++...-+.-+.--+........-|-.|.+.+.+..+.++-....+..-.-+..-|.+++..|..   
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VL  168 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVL  168 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHH
Confidence            36777777777777766555433211122334444555677778877777777666654333333446666666554   


Q ss_pred             --cccHHHHHHHH
Q 040580          232 --ERKFFMLGEFL  242 (412)
Q Consensus       232 --~~~~~~a~~~~  242 (412)
                        .|.+++|+++.
T Consensus       169 lPLG~~~eAeelv  181 (309)
T PF07163_consen  169 LPLGHFSEAEELV  181 (309)
T ss_pred             hccccHHHHHHHH
Confidence              47777777766

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

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=84.05  E-value=10  Score=31.28  Aligned_cols=52  Identities=6%  Similarity=0.023  Sum_probs=23.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHH
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIID  138 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  138 (412)
                      ++.+.+.+.+.+++...++-++.. +.|..+-..++..++-.|++++|..-++
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~   59 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLN   59 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHH
Confidence            333444444444444444444432 3334444444555555555555544444

>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=83.84  E-value=19  Score=28.20  Aligned_cols=50  Identities=14%  Similarity=0.128  Sum_probs=25.0

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          125 GRIGCFNEIISIIDQVSCRNADLLPE---VYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      .+.++.+++..+++.+..-  .|...   ++..  ..+...|+|.+|..+|+++...
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDG--WLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhcc
Confidence            3445666666666655432  22222   2222  2345566666666666665554

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.60  E-value=18  Score=27.85  Aligned_cols=50  Identities=8%  Similarity=0.020  Sum_probs=29.6

Q ss_pred             cccHHHHHHHHHHHhcCCCCc-chHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          232 ERKFFMLGEFLRDVGLGRKDL-GNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       232 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      ..+.+++..++..+..-.|+. ...++.  ...+...|++++|.++|++..+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFD--GWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhcc
Confidence            456666666666665444432 112232  33456678888888888887764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.08  E-value=16  Score=31.37  Aligned_cols=91  Identities=7%  Similarity=-0.126  Sum_probs=62.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhc
Q 040580          187 GNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAG  266 (412)
Q Consensus       187 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  266 (412)
                      ...=|.+++..|++.++....-+--+.--+.-+.+...-|-.|.|.+.+..+.++-+..-..+.+-+..-|..+...|..
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            33457888899999888776555443332334556666777888888888888877776555554445667777776665


Q ss_pred             -----CCChHHHHHHH
Q 040580          267 -----NFKMKSLQREF  277 (412)
Q Consensus       267 -----~g~~~~a~~~~  277 (412)
                           .|.+++|.++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 48888887765

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

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

Probab=82.60  E-value=4.3  Score=21.65  Aligned_cols=27  Identities=19%  Similarity=0.153  Sum_probs=16.1

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      .|..+...|...|++++|+..|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            455555666666666666666666554

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 ....

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=82.17  E-value=55  Score=32.39  Aligned_cols=213  Identities=9%  Similarity=0.039  Sum_probs=94.8

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC-------hHHHHHHHHHHHHCCCCCChH---HHH
Q 040580          119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ-------LELMENTLKEMVSRGFSVDSA---TGN  188 (412)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-------~~~a~~~~~~m~~~g~~p~~~---~~~  188 (412)
                      .+|-.|.|+|++++|.++.++.... .......+...+..|....+       -++...-|++..+.....|+.   .|.
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~DpyK~AvY~  194 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPYKRAVYK  194 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChHHHHHHH
Confidence            3556788999999999999666543 34444577788888876533       235555566665543322432   232


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----------ccHHHHHHHHHHHhcCCCCcchHH
Q 040580          189 AFIIYYSRFG-SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE-----------RKFFMLGEFLRDVGLGRKDLGNLL  256 (412)
Q Consensus       189 ~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~  256 (412)
                       +|..|--.. ....            +..+..-|-.+=-.+.+.           -.+++..+.+.+.+....+. ...
T Consensus       195 -ilg~cD~~~~~~~~------------V~~tiED~LW~~L~~vr~~~~~~~~~~e~~~L~~LQ~~i~~~Ge~~F~~-~~~  260 (613)
T PF04097_consen  195 -ILGRCDLSRRHLPE------------VARTIEDWLWLQLSLVREDERSSSSAYERYTLEDLQKLILKYGESHFNA-GSN  260 (613)
T ss_dssp             -HHHT--CCC-S-TT------------C--SHHHHHHHHHHH---TTSSSSSSS----HHHHHHHHHHH-GGGCTT----
T ss_pred             -HHhcCCccccchHH------------HhCcHHHHHHHHHHhhccCCCccccccccccHHHHHHHHHHhchhhccc-chh
Confidence             222221111 1101            011111111111111111           12344444444555554443 111


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHh-CCCCCCHhhHHHHHHHHH
Q 040580          257 WNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKH-ESVGPDLVTYGCVVDAYL  335 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~  335 (412)
                      .-.....+.-.|++|.|++.+.+  ..+...+.+.+.+.+.-|.-.+-.+...   ..+.. ..-.|....+..||..|+
T Consensus       261 p~~Yf~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~  335 (613)
T PF04097_consen  261 PLLYFQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYT  335 (613)
T ss_dssp             ---HHHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHH
Confidence            22334566778999999998877  2333556667766665543322222211   22221 111122266788888888


Q ss_pred             h---ccccchHHHHHHhcc
Q 040580          336 D---KRLGRNLDFGLSKMN  351 (412)
Q Consensus       336 ~---~~~~~~a~~~~~~m~  351 (412)
                      +   ..++.+|.+++-.+.
T Consensus       336 ~~F~~td~~~Al~Y~~li~  354 (613)
T PF04097_consen  336 RSFEITDPREALQYLYLIC  354 (613)
T ss_dssp             HTTTTT-HHHHHHHHHGGG
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            6   567778888887773

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.60  E-value=45  Score=30.98  Aligned_cols=63  Identities=10%  Similarity=0.024  Sum_probs=27.3

Q ss_pred             hcCCCCCHHh--HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHH--HHHHHHHHHHccCCHHHHHHHHH
Q 040580           72 SEGLLPDNST--LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQ--VLSDLMDAYGRIGCFNEIISIID  138 (412)
Q Consensus        72 ~~g~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~  138 (412)
                      +.|..|+...  -.+.+..++..|+.+    +.+.+.+.|..|+..  ...+-+...++.|+.+.+..+++
T Consensus        23 ~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~   89 (413)
T PHA02875         23 DIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLD   89 (413)
T ss_pred             HCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHH
Confidence            4455554322  223344445555544    333344444433321  11223444455666665544443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=80.99  E-value=13  Score=30.67  Aligned_cols=75  Identities=7%  Similarity=-0.095  Sum_probs=38.4

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHc--CCCCcHhHHHHHHH
Q 040580          222 IRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA--GFHPDLTTFNIRAV  297 (412)
Q Consensus       222 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~  297 (412)
                      .+..+..+.+.+.+.++....++-....+. |...-..+++.||-.|++++|..-++-.-+.  ...+-..+|..+|.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            344455566666666666665543222221 3345556666666777777665544433321  12333445555554

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=80.84  E-value=14  Score=34.29  Aligned_cols=117  Identities=9%  Similarity=-0.008  Sum_probs=74.8

Q ss_pred             HccCCHHHHH-HHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 040580          125 GRIGCFNEII-SIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEM  203 (412)
Q Consensus       125 ~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  203 (412)
                      ...|++-.|- +++..++.  .+.+|+.....-..+...|+++.+...+....+. +.....+..++++...+.|++++|
T Consensus       300 ~~~gd~~aas~~~~~~lr~--~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        300 LADGDIIAASQQLFAALRN--QQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHH
Confidence            3456655554 34444432  3445555444455567789999998888776553 334667888899999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          204 ETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      ...-.-|....+. ++.+.......--..|-++++.-.|+++
T Consensus       377 ~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~  417 (831)
T PRK15180        377 LSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRV  417 (831)
T ss_pred             HHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHH
Confidence            9998888876654 3333322222223345677777777765

---

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	412
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-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 = 68.7 bits (167), Expect = 2e-12
 Identities = 75/453 (16%), Positives = 140/453 (30%), Gaps = 116/453 (25%)

Query: 13  KFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDC-------ASLVEDLGRKKKPHLAH- 64
            F ++NV   Q + K   L + ++  R  +  +           +  D+    K      
Sbjct: 125 VFAKYNVSRLQPYLK---LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181

Query: 65  ------QLVNTVKSEGLLPDNSTLCALMLC----YANNGFVLEAQVVWEE------LLSS 108
                  L N    E +L     L   +       +++   ++ ++   +      L S 
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 109 SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR---------NADLLPEVYSRAISCF 159
            +   + VL ++ +A        +  +  + +SC+           D L    +  IS  
Sbjct: 242 PYENCLLVLLNVQNA--------KAWNAFN-LSCKILLTTRFKQVTDFLSAATTTHISLD 292

Query: 160 GKQGQLELMENTLKEMVSRGFSVDSA-------TGNAFIIYYSRFGSLTEMETAYGRLKR 212
                L   E  +K ++ +              T N   +  S          A      
Sbjct: 293 HHSMTLTPDE--VKSLLLKYLDCRPQDLPREVLTTNPRRL--SIIAESIRDGLA--TWDN 346

Query: 213 SRHL-IDK-EGIRAVSFTYLKE---RKFF-MLGEFLRDVGLGRKDLGNLLWNLLLLSYAG 266
            +H+  DK   I   S   L+    RK F  L  F     +    L  L+W  ++     
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS-LIWFDVI----K 401

Query: 267 NFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK--HESVGPDL 324
           +  M  +  +  + S     P  +T +I        S++ +L + LE+    H S+    
Sbjct: 402 SDVMVVVN-KLHKYSLVEKQPKESTISI-------PSIYLELKVKLENEYALHRSI---- 449

Query: 325 VTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGKGDFH----SSSEAF 380
                 VD Y    + +  D        DD      D Y +   G    H       E  
Sbjct: 450 ------VDHY---NIPKTFD-------SDDLIPPYLDQYFYSHIG---HHLKNIEHPERM 490

Query: 381 LEFKRQRKW--TYRKLIAVYLKKQLRRNQIFWN 411
             F   R     +R     +L++++R +   WN
Sbjct: 491 TLF---RMVFLDFR-----FLEQKIRHDSTAWN 515

>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 = 49.5 bits (117), Expect = 1e-06
 Identities = 76/442 (17%), Positives = 129/442 (29%), Gaps = 116/442 (26%)

Query: 22  HQTHPKNGDLARKIIRYRK-----QEGFV---DCASLVEDLGRK--KKPHLAHQLVNTVK 71
           H  H  + +      +Y+      ++ FV   DC   V+D+ +    K  + H +++   
Sbjct: 2   HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKD-VQDMPKSILSKEEIDHIIMSKDA 60

Query: 72  SEGLLPDNSTLCALMLCYANNG---FV---LEAQVVWEELLSSSFVLSVQVLSDLMDAY- 124
             G L     L   +L         FV   L     +   L S      +  S +   Y 
Sbjct: 61  VSGTL----RLFWTLLSKQEEMVQKFVEEVLRINYKF---LMSPIKTEQRQPSMMTRMYI 113

Query: 125 -GRIGCFNEI-------ISIIDQV-SCRNA--DLLPEVYSRAISC-----FGKQGQLELM 168
             R   +N+        +S +      R A  +L P      +        GK       
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN---VLIDGVLGSGKT------ 164

Query: 169 ENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFT 228
              +   V   + V       F I++    +    ET    L++  + ID         +
Sbjct: 165 --WVALDVCLSYKVQCK--MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 229 YLKERKFFMLGEFLRDVGLGRKDLGN-LL-----WNLLLLSYAGNFKMKSLQREFMRMSE 282
              + +   +   LR + L  K   N LL      N    + A N   K L         
Sbjct: 221 SNIKLRIHSIQAELRRL-LKSKPYENCLLVLLNVQNAKAWN-AFNLSCKIL--------- 269

Query: 283 AGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRN 342
                 LTT   + V            LS     H S+    +T        L     ++
Sbjct: 270 ------LTTRF-KQVTDF---------LSAATTTHISLDHHSMT--------LTPDEVKS 305

Query: 343 LDFGLSK---MNLDDSP--VVSTDPYVFEAFGKG--DFHSSSEAFLEFKRQRKWTYRKLI 395
           L   L K       D P  V++T+P       +   D  ++ +    +K         +I
Sbjct: 306 L---LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD---NWKHVNCDKLTTII 359

Query: 396 AVYLKKQ----LRRN----QIF 409
              L        R+      +F
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVF 381

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.7 bits (101), Expect = 1e-04
 Identities = 14/85 (16%), Positives = 25/85 (29%), Gaps = 1/85 (1%)

Query: 251 DLGNLLWNLLLLSYAGNF-KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLH 309
               LL                 L        +      L  +N   + ++R   F +L 
Sbjct: 126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELV 185

Query: 310 LSLEHMKHESVGPDLVTYGCVVDAY 334
             L  +K   + PDL++Y   +   
Sbjct: 186 YVLFMVKDAGLTPDLLSYAAALQCM 210

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	412
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.74
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.71
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.69
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.69
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	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	99.65
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.65
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.64
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.63
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.62
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.58
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.58
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.56
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.51
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.49
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.47
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.47
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.47
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.47
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.43
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.43
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
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.41
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.4
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.36
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.29
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.27
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.22
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.21
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.21
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.21
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.19
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.18
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.17
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.17
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.14
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.13
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.05
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.04
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.02
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.02
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.01
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.97
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.97
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.97
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.95
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.94
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.92
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.91
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.9
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.89
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.87
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.85
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.84
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.84
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.84
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.83
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.82
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.81
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.8
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.75
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.73
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.73
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.71
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.69
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.69
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.69
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.68
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.68
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.66
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.64
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.62
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.62
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.6
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.6
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.58
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.58
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.57
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.57
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.56
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.54
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.53
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.53
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.53
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.51
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.49
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.47
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.47
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.45
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.44
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.44
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.42
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.42
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.4
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.4
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.39
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.39
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.38
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.35
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.33
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.33
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.31
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.31
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.31
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.28
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.27
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.26
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.26
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.25
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.25
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.23
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.22
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.17
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.13
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.11
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.11
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.1
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.07
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.06
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.05
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.04
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.04
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.04
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.96
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.94
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.93
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.92
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.9
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.79
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.73
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.71
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.71
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.66
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.66
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.65
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.65
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.64
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.63
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.62
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.61
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.54
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.52
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.48
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.43
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.23
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.14
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.07
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.04
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.95
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.71
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.66
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.66
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.65
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.57
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.55
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.53
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.28
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.16
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.16
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.13
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.99
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.71
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.62
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.51
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.51
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.47
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.3
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.93
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.77
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.67
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.53
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.98
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.62
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.29
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.83
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.77
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.64
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.55
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.41
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.96
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.88
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.19
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.43
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.31
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.19
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	88.97
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	88.96
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	84.91
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	84.77
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.5
2p58_C	116	Putative type III secretion protein YSCG; type III	84.07
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	82.53
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	82.35
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	80.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	80.71

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.6e-36  Score=290.66  Aligned_cols=388  Identities=9%  Similarity=-0.066  Sum_probs=312.0

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhc--cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQ--EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN   91 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~   91 (412)
                      ..++.++..|.+.|++++|..+|+++..  |+..++..++.+|.+.|++++|..+|+++...  +++..+++.++.+|.+
T Consensus        85 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~  162 (597)
T 2xpi_A           85 DYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVK  162 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHH
Confidence            3467777788888888888888887753  56677777888888888888888888777543  5677778888888888


Q ss_pred             cCChHHHHHHHHHHHh-C--------------CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-----------
Q 040580           92 NGFVLEAQVVWEELLS-S--------------SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-----------  145 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~-~--------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------  145 (412)
                      .|++++|.++|+++.. .              +.+++..+|+.++.+|.+.|++++|.++|++|.+.+.           
T Consensus       163 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  242 (597)
T 2xpi_A          163 LYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVS  242 (597)
T ss_dssp             TTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHH
Confidence            8888888887774322 1              2344677788888888888888888777777754321           


Q ss_pred             -----------------------------------------------------------CCCHHhHHHHHHHHHhcCChH
Q 040580          146 -----------------------------------------------------------DLLPEVYSRAISCFGKQGQLE  166 (412)
Q Consensus       146 -----------------------------------------------------------~~~~~~~~~li~~~~~~g~~~  166 (412)
                                                                                 ++++.+|+.++.+|.+.|+++
T Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  322 (597)
T 2xpi_A          243 NHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFI  322 (597)
T ss_dssp             TTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHH
T ss_pred             hhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHH
Confidence                                                                       256667888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHh
Q 040580          167 LMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVG  246 (412)
Q Consensus       167 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  246 (412)
                      +|+.+|+++.+.+.. +..++..++.++.+.|++++|..+++.+.+.. +.+..+++.++.+|.+.|++++|.+.|+++.
T Consensus       323 ~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  400 (597)
T 2xpi_A          323 DVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSS  400 (597)
T ss_dssp             HHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            888888888876432 66778888888888888888888888887543 4578899999999999999999999999875


Q ss_pred             cCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhh
Q 040580          247 LGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVT  326 (412)
Q Consensus       247 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  326 (412)
                      ...+. +..+|+.++.+|.+.|++++|+.+|+++.+.+ +++..+|..++.+|.+.|++++|.++|+++.+... .+..+
T Consensus       401 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~  477 (597)
T 2xpi_A          401 TMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLL  477 (597)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHH
T ss_pred             HhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHH
Confidence            54333 45899999999999999999999999998764 45788999999999999999999999999987532 36889


Q ss_pred             HHHHHHHHHhccccchHHHHHHhc-cC----CCCCC--cccHHHHHHHHhc-CCcccHHHHHHHhcc---CchHHHHHHH
Q 040580          327 YGCVVDAYLDKRLGRNLDFGLSKM-NL----DDSPV--VSTDPYVFEAFGK-GDFHSSSEAFLEFKR---QRKWTYRKLI  395 (412)
Q Consensus       327 ~~~li~~~~~~~~~~~a~~~~~~m-~~----~~~p~--~~~~~~li~~~~~-~~~~~a~~~~~~~~~---~~~~~~~~l~  395 (412)
                      |+.+...|.+.|++++|.++++++ ..    +..|+  ..++..+..+|.+ |++++|.+.+.++..   .+..+|..++
T Consensus       478 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  557 (597)
T 2xpi_A          478 LNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIA  557 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            999999999999999999999998 44    55677  5688888998877 999999999988654   5889999999


Q ss_pred             HHHHHcCcccccc
Q 040580          396 AVYLKKQLRRNQI  408 (412)
Q Consensus       396 ~~~~~~g~~~~a~  408 (412)
                      .+|.+.|++++|.
T Consensus       558 ~~~~~~g~~~~A~  570 (597)
T 2xpi_A          558 LVYLHKKIPGLAI  570 (597)
T ss_dssp             HHHHHTTCHHHHH
T ss_pred             HHHHHhCCHHHHH
Confidence            9999999999983

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.1e-34  Score=280.98  Aligned_cols=379  Identities=8%  Similarity=-0.103  Sum_probs=281.1

Q ss_pred             ccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           21 SHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      ..+.+.|.+..+...+..++.++...|+.++..+.+.|++++|..+|++|..  ..|+..++..++.+|.+.|++++|..
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           61 NNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHH
Confidence            3456778888899999998888999999999999999999999999999985  46888999999999999999999999


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh-hc--------------CCCCCHHhHHHHHHHHHhcCCh
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS-CR--------------NADLLPEVYSRAISCFGKQGQL  165 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-~~--------------~~~~~~~~~~~li~~~~~~g~~  165 (412)
                      +|+.+...  +++..+++.++.+|.+.|++++|.++|+++. ..              +.+.++.+|+.++.+|.+.|++
T Consensus       139 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          139 LLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            99998653  7899999999999999999999999999542 22              2234578999999999999999


Q ss_pred             HHHHHHHHHHHHCCCC----------------------------------------------------------------
Q 040580          166 ELMENTLKEMVSRGFS----------------------------------------------------------------  181 (412)
Q Consensus       166 ~~a~~~~~~m~~~g~~----------------------------------------------------------------  181 (412)
                      ++|+++|++|.+.+..                                                                
T Consensus       217 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  296 (597)
T 2xpi_A          217 DRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLS  296 (597)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            9999999999764321                                                                


Q ss_pred             ------CChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchH
Q 040580          182 ------VDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNL  255 (412)
Q Consensus       182 ------p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  255 (412)
                            ++..++..++.+|.+.|++++|..+|+++.+.+ +.+..++..++.+|.+.|++++|.++++++....++ +..
T Consensus       297 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~  374 (597)
T 2xpi_A          297 SINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPE-KAV  374 (597)
T ss_dssp             TSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-SHH
T ss_pred             HhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcc-cHH
Confidence                  455566666666777777777777777766554 225566667777777777777777777766433322 457


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYL  335 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  335 (412)
                      +|+.++..|.+.|++++|..+|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+. .+..+|..+..+|.
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHH
Confidence            88888888888888888888888887642 33467888888888888888888888888876532 36778888888888


Q ss_pred             hccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc--------Cc--hHHHHHHHHHHHHcCcc
Q 040580          336 DKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR--------QR--KWTYRKLIAVYLKKQLR  404 (412)
Q Consensus       336 ~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~--------~~--~~~~~~l~~~~~~~g~~  404 (412)
                      +.|++++|.++++++......+..+|+.+...|.+ |++++|.+.|.++..        |+  ..+|..++.+|.+.|++
T Consensus       453 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  532 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY  532 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH
Confidence            88888888888888832222456677788888777 888888888887632        33  56888888888888888


Q ss_pred             ccc
Q 040580          405 RNQ  407 (412)
Q Consensus       405 ~~a  407 (412)
                      ++|
T Consensus       533 ~~A  535 (597)
T 2xpi_A          533 DAA  535 (597)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            887

>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=6e-35  Score=273.05  Aligned_cols=202  Identities=8%  Similarity=0.023  Sum_probs=112.8

Q ss_pred             HHHHHHhhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC---------HHHHH
Q 040580          135 SIIDQVSCRNADLLPE-VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGS---------LTEME  204 (412)
Q Consensus       135 ~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---------~~~a~  204 (412)
                      .+.+++++++....|. .++.+|.+|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         ++.|.
T Consensus        11 ~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~   90 (501)
T 4g26_A           11 NLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGF   90 (501)
T ss_dssp             -------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHH
T ss_pred             HHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHH
Confidence            3334444444444443 3444455555555555555555555555555555555555555544332         34455


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 040580          205 TAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG  284 (412)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  284 (412)
                      ++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|...+..||..+||++|.+|++.|++++|.++|++|.+.|
T Consensus        91 ~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G  170 (501)
T 4g26_A           91 DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESE  170 (501)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            55555555555555555555555555555555555555555555555555666666666667777777777777777777


Q ss_pred             CCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 040580          285 FHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD  336 (412)
Q Consensus       285 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  336 (412)
                      +.||..||++||.+|++.|++++|.+++++|.+.|+.|+..||+.++..|+.
T Consensus       171 ~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          171 VVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            7777777777777777777777777777777777777777777777766665

>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=2.5e-34  Score=268.92  Aligned_cols=190  Identities=9%  Similarity=0.045  Sum_probs=181.8

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC---------hHHHHHHHHHHHhCCCCcCH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF---------VLEAQVVWEELLSSSFVLSV  114 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~m~~~~~~~~~  114 (412)
                      ...++.+|.+|++.|++++|+++|++|.+.|++||..|||+||.+|++.+.         +++|.++|++|.+.|+.||.
T Consensus        26 e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            346889999999999999999999999999999999999999999988765         68899999999999999999


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY  194 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  194 (412)
                      .|||+||.+|++.|++++|.++|++|.+.|+.|+..+||++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcc
Q 040580          195 SRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKER  233 (412)
Q Consensus       195 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  233 (412)
                      ++.|++++|.+++++|.+.|..|+..||+.++..++..+
T Consensus       186 ~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             hhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            999999999999999999999999999999999998753

>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=99.97  E-value=3.3e-27  Score=216.23  Aligned_cols=376  Identities=9%  Similarity=-0.085  Sum_probs=319.6

Q ss_pred             cccccCCCChHHHHHHHHHhhc--c-ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChH
Q 040580           20 PSHQTHPKNGDLARKIIRYRKQ--E-GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVL   96 (412)
Q Consensus        20 ~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~   96 (412)
                      ...+.+.|++++|...++.+.+  | +...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|+++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            3455678999999999988764  3 55677778888899999999999999988763 567899999999999999999


Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      +|...|+++.+.. +.+..+|..+..++.+.|++++|.+.|+++.+.+ +-++..+..+...+...|++++|...|+++.
T Consensus        85 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            9999999999864 5567789999999999999999999999998765 4445578888999999999999999999998


Q ss_pred             HCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHH
Q 040580          177 SRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLL  256 (412)
Q Consensus       177 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  256 (412)
                      +... -+..++..+...+.+.|++++|...|+++.+.. +.+...+..+...+...|++++|...+++.....++ +..+
T Consensus       163 ~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  239 (388)
T 1w3b_A          163 ETQP-NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVV  239 (388)
T ss_dssp             HHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHH
T ss_pred             HhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHH
Confidence            8632 256789999999999999999999999999865 346788999999999999999999999886444443 3589


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 040580          257 WNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD  336 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  336 (412)
                      +..+...|.+.|++++|...|+++.+.. +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...+.+
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  317 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHH
Confidence            9999999999999999999999999763 2346789999999999999999999999998753 3478899999999999


Q ss_pred             ccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCc
Q 040580          337 KRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQL  403 (412)
Q Consensus       337 ~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~  403 (412)
                      .|++++|.+.++++....+.+...+..+...|.+ |++++|.+.+.++..   .+...|..++..+.+.|+
T Consensus       318 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             cCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            9999999999999943333455667778888877 999999999988654   568889999998887764

>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=99.96  E-value=2e-25  Score=204.28  Aligned_cols=348  Identities=8%  Similarity=-0.033  Sum_probs=298.9

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ...+.+.|++++|.+.++++.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            456678899999999999998763 3356677788888999999999999999998865 67889999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD-SATGNAFIIYYSRFGSLTEMETAYGR  209 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~  209 (412)
                      ++|.+.|+++.+.. +.++.+|..+..++.+.|++++|...|+++.+.  .|+ ...+..+...+...|++++|...|+.
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            99999999998765 455668999999999999999999999999885  454 45677788888999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-
Q 040580          210 LKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-  288 (412)
Q Consensus       210 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-  288 (412)
                      +.+.. +.+..++..+...+.+.|++++|.+.|+++....++ +...|..+...+...|++++|...|++..+.  .|+ 
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~  236 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNH  236 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTC
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCC
Confidence            98764 336789999999999999999999999997655444 3588999999999999999999999998875  454 


Q ss_pred             HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHH
Q 040580          289 LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAF  368 (412)
Q Consensus       289 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~  368 (412)
                      ..++..+...+.+.|++++|...++++.+... .+..+|..+...+.+.|++++|.+.++++....+++..++..+...+
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            78889999999999999999999999988542 25678999999999999999999999999333345667788888888


Q ss_pred             hc-CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCcccccc
Q 040580          369 GK-GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       369 ~~-~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                      .+ |++++|.+.+.++..   .+..+|..++.+|.+.|++++|.
T Consensus       316 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~  359 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            77 999999999998765   56789999999999999999983

>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=3.3e-22  Score=186.48  Aligned_cols=357  Identities=9%  Similarity=-0.039  Sum_probs=201.4

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...+..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...|+.+.+.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            44456666666666666666666666665542 3355666666666666666666666666666554 344566666666


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCH---HhHHHHH------------HHHHhcCChHHHHHHHHHHHHCCCCCChHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLP---EVYSRAI------------SCFGKQGQLELMENTLKEMVSRGFSVDSATG  187 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~li------------~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  187 (412)
                      +|.+.|++++|.+.|+++.+.+ +.++   ..+..+.            ..+...|++++|+..|+++.+... .+...+
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  180 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELR  180 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHH
Confidence            6666666666666666665433 2223   3444332            235566666666666666655421 244556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHH-------
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLL-------  260 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------  260 (412)
                      ..+..++.+.|++++|...|+.+.+.. +.+..++..+...|...|++++|.+.++++....++ +...+..+       
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~  258 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLN  258 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHH
Confidence            666666666666666666666665542 234566666666666666666666666665333322 12333333       


Q ss_pred             -----HHHHhcCCChHHHHHHHHHHHHcCCCCc-----HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHH
Q 040580          261 -----LLSYAGNFKMKSLQREFMRMSEAGFHPD-----LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCV  330 (412)
Q Consensus       261 -----i~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  330 (412)
                           ...|...|++++|...|+++.+.  .|+     ...+..+...+.+.|++++|...++++.+.. +.+...|..+
T Consensus       259 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l  335 (450)
T 2y4t_A          259 KLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDR  335 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence                 56666666666666666666653  343     2355566666666666666666666665431 1245666666


Q ss_pred             HHHHHhccccchHHHHHHhc-cCCCCCCcc-cHHHHHH------------HHhc-C-----CcccHHHHHHHh----cc-
Q 040580          331 VDAYLDKRLGRNLDFGLSKM-NLDDSPVVS-TDPYVFE------------AFGK-G-----DFHSSSEAFLEF----KR-  385 (412)
Q Consensus       331 i~~~~~~~~~~~a~~~~~~m-~~~~~p~~~-~~~~li~------------~~~~-~-----~~~~a~~~~~~~----~~-  385 (412)
                      ..+|...|++++|.+.+++. ..  .|+.. .+..+-.            .|.. |     +..++.+.+.+.    .| 
T Consensus       336 ~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd  413 (450)
T 2y4t_A          336 AEAYLIEEMYDEAIQDYETAQEH--NENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPD  413 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGG
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCC
Confidence            66666666666666666666 32  22222 2222211            1111 2     334455555542    11 


Q ss_pred             --Cc-------hHHHHHHHHHHHHcCcccccccc
Q 040580          386 --QR-------KWTYRKLIAVYLKKQLRRNQIFW  410 (412)
Q Consensus       386 --~~-------~~~~~~l~~~~~~~g~~~~a~~w  410 (412)
                        ++       ...+..+..+|...|+.+++..|
T Consensus       414 ~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r~~y  447 (450)
T 2y4t_A          414 NFQNEEEKKKAEKKFIDIAAAKEVLSDPEMRKKF  447 (450)
T ss_dssp             GCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC---
T ss_pred             CCCCchHHHHHHHHHHHHHHHHHHhCCHHHHHhc
Confidence              22       23678889999999998888655

>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=2.3e-22  Score=187.60  Aligned_cols=315  Identities=10%  Similarity=-0.011  Sum_probs=262.0

Q ss_pred             CCchhhccccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHH
Q 040580            9 HGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCAL   85 (412)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l   85 (412)
                      ++.....+..+...+.+.|++++|...|+.+.+   .+..+|..+...+...|++++|...|+++.+.+ +.+..++..+
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  100 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQR  100 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            444556677888899999999999999998765   377889999999999999999999999999875 4468899999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcCH---HHHHHH------------HHHHHccCCHHHHHHHHHHHhhcCCCCCHH
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLSV---QVLSDL------------MDAYGRIGCFNEIISIIDQVSCRNADLLPE  150 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  150 (412)
                      ..++.+.|++++|...|+.+.+.+ +.+.   .++..+            ...+.+.|++++|.+.|+++.+.. +.++.
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  178 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAE  178 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChH
Confidence            999999999999999999999864 3344   566665            444899999999999999998765 56778


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-----
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAV-----  225 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-----  225 (412)
                      ++..+...|.+.|++++|+.+|+++.+.. +.+..++..+...+...|++++|...|+.+.+.. +.+...+..+     
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~  256 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHH
Confidence            99999999999999999999999998753 2367889999999999999999999999998654 2245555544     


Q ss_pred             -------HHHHHhcccHHHHHHHHHHHhcCCCC-cc--hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          226 -------SFTYLKERKFFMLGEFLRDVGLGRKD-LG--NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       226 -------i~~~~~~~~~~~a~~~~~~~~~~~~~-~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                             ...+.+.|++++|.+.++++....+. +.  ..+|..+...+.+.|++++|+..++++.+.. +.+...+..+
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l  335 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDR  335 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence                   78899999999999999987554443 21  3478899999999999999999999988753 3357899999


Q ss_pred             HHHHHccCChhHHHHHHHHHHhCCCCCC-HhhHHHHH
Q 040580          296 AVAFSRMSMFWDLHLSLEHMKHESVGPD-LVTYGCVV  331 (412)
Q Consensus       296 l~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li  331 (412)
                      ..+|...|++++|...++++.+  +.|+ ...+..+-
T Consensus       336 ~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~  370 (450)
T 2y4t_A          336 AEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLE  370 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            9999999999999999999987  4454 44555554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=4.9e-22  Score=188.40  Aligned_cols=371  Identities=8%  Similarity=-0.122  Sum_probs=285.6

Q ss_pred             cccccccccCCCChHHHHHHHHHhhc--cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQ--EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG   93 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~   93 (412)
                      +......+.+.|++++|...|+++.+  |+...|..+..++.+.|++++|.+.|+++.+.+ +.+..++..+..++.+.|
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g   87 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLG   87 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHh
Confidence            34455677889999999999999865  688899999999999999999999999999875 446788999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCcC------------------------------------------------------------
Q 040580           94 FVLEAQVVWEELLSSSFVLS------------------------------------------------------------  113 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~------------------------------------------------------------  113 (412)
                      ++++|...|+.+.+.+ +++                                                            
T Consensus        88 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (514)
T 2gw1_A           88 KFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMAS  166 (514)
T ss_dssp             CHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHH
T ss_pred             hHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHH
Confidence            9999999999988765 211                                                            


Q ss_pred             -------------------HHHHHHHHHHHHc---cCCHHHHHHHHHHHhh-----cCC--------CCCHHhHHHHHHH
Q 040580          114 -------------------VQVLSDLMDAYGR---IGCFNEIISIIDQVSC-----RNA--------DLLPEVYSRAISC  158 (412)
Q Consensus       114 -------------------~~~~~~li~~~~~---~~~~~~a~~~~~~m~~-----~~~--------~~~~~~~~~li~~  158 (412)
                                         ...+..+...+..   .|++++|...|+++.+     ...        +.++.++..+...
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (514)
T 2gw1_A          167 FFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIF  246 (514)
T ss_dssp             HHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHH
Confidence                               3333334443443   7889999999998876     211        1223477788888


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  238 (412)
                      +...|++++|...|+++.+..  |+...+..+...+...|++++|...++.+.+.. +.+..++..+...|...|++++|
T Consensus       247 ~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  323 (514)
T 2gw1_A          247 KFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQA  323 (514)
T ss_dssp             HHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHH
Confidence            999999999999999988764  337778888888999999999999999988764 33667888888999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhC
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHE  318 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  318 (412)
                      ...+++.....+. +..++..+...|...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.
T Consensus       324 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          324 GKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             HHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999886544433 34788888999999999999999999988652 334677888888899999999999999888653


Q ss_pred             CCC-CC----HhhHHHHHHHHHh---ccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc---
Q 040580          319 SVG-PD----LVTYGCVVDAYLD---KRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR---  385 (412)
Q Consensus       319 g~~-p~----~~~~~~li~~~~~---~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~---  385 (412)
                      ... |+    ...+..+...+..   .|++++|.+.++.. ...+ .+...+..+...|.+ |++++|.+.+.+...   
T Consensus       402 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          402 ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDP-RSEQAKIGLAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            211 12    3377888888888   89999999999887 4332 234455566666666 999999888887544   


Q ss_pred             CchHHHHHH
Q 040580          386 QRKWTYRKL  394 (412)
Q Consensus       386 ~~~~~~~~l  394 (412)
                      .+...+..+
T Consensus       481 ~~~~~~~~~  489 (514)
T 2gw1_A          481 TMEEKLQAI  489 (514)
T ss_dssp             SHHHHHHHH
T ss_pred             ccHHHHHHH
Confidence            344444433

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=9.2e-22  Score=186.53  Aligned_cols=356  Identities=9%  Similarity=-0.055  Sum_probs=290.5

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...+......+.+.|++++|+..|+++.+..  |+..+|..+..++.+.|++++|...++.+.+.+ +.+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            4456777888999999999999999999874  799999999999999999999999999999876 6678899999999


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCC-------------------------------------------------------
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLL-------------------------------------------------------  148 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~-------------------------------------------------------  148 (412)
                      +.+.|++++|...|+++...+ +++                                                       
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            999999999999999987654 111                                                       


Q ss_pred             ------------------------HHhHHHHHHHHHh---cCChHHHHHHHHHHHH-----CCCCC--------ChHHHH
Q 040580          149 ------------------------PEVYSRAISCFGK---QGQLELMENTLKEMVS-----RGFSV--------DSATGN  188 (412)
Q Consensus       149 ------------------------~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~g~~p--------~~~~~~  188 (412)
                                              +..+......+..   .|++++|+.+|+++.+     ..-.|        +..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                    2233333333333   8999999999999987     31122        345677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCC
Q 040580          189 AFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNF  268 (412)
Q Consensus       189 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  268 (412)
                      .+...+...|++++|...++.+.+....  ...+..+...|...|++++|.+.+++.....+. +..++..+...|...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhC
Confidence            8888999999999999999999887643  888999999999999999999999987554443 3488999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHH
Q 040580          269 KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLS  348 (412)
Q Consensus       269 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~  348 (412)
                      ++++|...|++..+.. +.+...+..+...+...|++++|...++++.+... .+...+..+...|.+.|++++|.+.++
T Consensus       319 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFP-EAPEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             CTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc-cCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998753 33567888899999999999999999999887432 256788889999999999999999999


Q ss_pred             hc-cCCC-CCC----cccHHHHHHHH-h---cCCcccHHHHHHHhc---cCchHHHHHHHHHHHHcCcccccc
Q 040580          349 KM-NLDD-SPV----VSTDPYVFEAF-G---KGDFHSSSEAFLEFK---RQRKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       349 ~m-~~~~-~p~----~~~~~~li~~~-~---~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                      ++ ...+ .|+    ...+..+...+ .   .|++++|.+.+.+..   +.+..+|..++.+|.+.|++++|.
T Consensus       397 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~  469 (514)
T 2gw1_A          397 LAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAI  469 (514)
T ss_dssp             HHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHH
Confidence            88 3322 122    22455555555 5   699999999998754   467889999999999999999983

>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=99.87  E-value=7.5e-20  Score=174.44  Aligned_cols=379  Identities=8%  Similarity=-0.055  Sum_probs=213.7

Q ss_pred             cccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      +..+...+.+.|++++|...|+++.+   .+..+|..+..++.+.|++++|++.|+++.+.+ +.+..++..+..++...
T Consensus        28 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  106 (537)
T 3fp2_A           28 LKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESL  106 (537)
T ss_dssp             HHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHc
Confidence            44555566667777777777766543   255666666667777777777777777766653 33566666666667777


Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC------CCCCHH----------------
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN------ADLLPE----------------  150 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~----------------  150 (412)
                      |++++|...|+.+ ..  .|+..  +..+..+...+....|.+.++++....      ..|+..                
T Consensus       107 g~~~~A~~~~~~~-~~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          107 GNFTDAMFDLSVL-SL--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             TCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             CCHHHHHHHHHHH-hc--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            7777777766522 21  12211  111222222333344444444442210      001111                


Q ss_pred             --------------hHHHHHHHHH--------hcCChHHHHHHHHHHHHCCCCCC--------hHHHHHHHHHHHhcCCH
Q 040580          151 --------------VYSRAISCFG--------KQGQLELMENTLKEMVSRGFSVD--------SATGNAFIIYYSRFGSL  200 (412)
Q Consensus       151 --------------~~~~li~~~~--------~~g~~~~a~~~~~~m~~~g~~p~--------~~~~~~li~~~~~~g~~  200 (412)
                                    ....+...+.        ..|++++|..+++++.+..  |+        ..++..+...+...|++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~  259 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNL  259 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccH
Confidence                          1111111111        1136677777777776642  32        12355555666677777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHH
Q 040580          201 TEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRM  280 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  280 (412)
                      ++|...++...+..  |+...+..+...+...|++++|.+.+++.....++ +..+|..+...|...|++++|...|++.
T Consensus       260 ~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a  336 (537)
T 3fp2_A          260 LDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKA  336 (537)
T ss_dssp             HHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            77777777777653  44666777777777777777777777765433332 2466777777777777777777777777


Q ss_pred             HHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCC-CCc
Q 040580          281 SEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDS-PVV  358 (412)
Q Consensus       281 ~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~-p~~  358 (412)
                      .+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.+++. ...+. ++.
T Consensus       337 ~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  414 (537)
T 3fp2_A          337 QSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKI  414 (537)
T ss_dssp             HHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhh
Confidence            6542 2235566677777777777777777777776542 124556666777777777777777777765 22111 111


Q ss_pred             c-c---HHHHHHHH-hc----------CCcccHHHHHHHhc---cCchHHHHHHHHHHHHcCccccc
Q 040580          359 S-T---DPYVFEAF-GK----------GDFHSSSEAFLEFK---RQRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       359 ~-~---~~~li~~~-~~----------~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      . .   +......+ ..          |++++|.+.+.+..   +.+...|..++.+|.+.|++++|
T Consensus       415 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A  481 (537)
T 3fp2_A          415 HVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEA  481 (537)
T ss_dssp             SSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHH
Confidence            1 0   11111112 22          67777777776543   35567777777777777777776

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=3.9e-18  Score=153.57  Aligned_cols=297  Identities=8%  Similarity=-0.056  Sum_probs=173.5

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAY  124 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  124 (412)
                      ..+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+...+
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHH
Confidence            345555666666666666666666666543 2345666666666666666666666666666553 33556666666666


Q ss_pred             HccCCHHHHHHHHHHHhhcCCC---CCHHhHHHH------------HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHH
Q 040580          125 GRIGCFNEIISIIDQVSCRNAD---LLPEVYSRA------------ISCFGKQGQLELMENTLKEMVSRGFSVDSATGNA  189 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~~~---~~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  189 (412)
                      ...|++++|.+.|++..+.. +   .++..+..+            ...+...|++++|+..++++.+... .+...+..
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~  159 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELREL  159 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHHH
Confidence            66666666666666665432 1   223344333            3556666666666666666655422 24455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHH-----------
Q 040580          190 FIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWN-----------  258 (412)
Q Consensus       190 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----------  258 (412)
                      +...+...|++++|...++...+.. +.+..++..+...+...|++++|.+.+++.....++. ...+.           
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~-~~~~~~~~~~~~~~~~  237 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDH-KRCFAHYKQVKKLNKL  237 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccc-hHHHHHHHHHHHHHHH
Confidence            6666666666666666666666543 3355566666666666666666666666543322221 12222           


Q ss_pred             -HHHHHHhcCCChHHHHHHHHHHHHcCCCCcH-----hHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 040580          259 -LLLLSYAGNFKMKSLQREFMRMSEAGFHPDL-----TTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVD  332 (412)
Q Consensus       259 -~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  332 (412)
                       .+...+.+.|++++|...+++..+.  .|+.     ..+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus       238 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  314 (359)
T 3ieg_A          238 IESAEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAE  314 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence             2244566667777777777766654  2332     123345556666677777777776665532 124556666666


Q ss_pred             HHHhccccchHHHHHHhc
Q 040580          333 AYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       333 ~~~~~~~~~~a~~~~~~m  350 (412)
                      .|.+.|++++|.+.+++.
T Consensus       315 ~~~~~g~~~~A~~~~~~a  332 (359)
T 3ieg_A          315 AYLIEEMYDEAIQDYEAA  332 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            666666666666666666

>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=99.86  E-value=4.5e-19  Score=169.05  Aligned_cols=365  Identities=8%  Similarity=-0.107  Sum_probs=254.6

Q ss_pred             CCchhhccccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHH
Q 040580            9 HGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCAL   85 (412)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l   85 (412)
                      ++.....+..+..+|.+.|++++|...++++.+   .+..++..+...+...|++++|...|+.+. .  .|+..  ...
T Consensus        55 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~-~--~~~~~--~~~  129 (537)
T 3fp2_A           55 DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVLS-L--NGDFD--GAS  129 (537)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC--------------
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHHh-c--CCCCC--hHH
Confidence            444556677888899999999999999998765   367789999999999999999999996432 2  23322  222


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC------CCCcCHH------------------------------HHHHHHHHHHcc--
Q 040580           86 MLCYANNGFVLEAQVVWEELLSS------SFVLSVQ------------------------------VLSDLMDAYGRI--  127 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~------------------------------~~~~li~~~~~~--  127 (412)
                      +..+...+....+...++.+.+.      ...|+..                              ....+...+...  
T Consensus       130 ~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (537)
T 3fp2_A          130 IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDE  209 (537)
T ss_dssp             --CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhh
Confidence            33444555566777777777543      1112222                              222222222222  


Q ss_pred             ------CCHHHHHHHHHHHhhcCCCCCHH-------hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 040580          128 ------GCFNEIISIIDQVSCRNADLLPE-------VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY  194 (412)
Q Consensus       128 ------~~~~~a~~~~~~m~~~~~~~~~~-------~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  194 (412)
                            |++++|.++|+++.+.. +.++.       ++..+...+...|++++|...|++..+.  .|+...+..+...+
T Consensus       210 ~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~  286 (537)
T 3fp2_A          210 GYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTL  286 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHH
Confidence                  47888888888887654 33333       4556667778888999999999988875  45577788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHH
Q 040580          195 SRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQ  274 (412)
Q Consensus       195 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  274 (412)
                      ...|++++|...++...+.. +.+..++..+...+...|++++|.+.+++.....+. +..+|..+...|...|++++|.
T Consensus       287 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~  364 (537)
T 3fp2_A          287 ADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESE  364 (537)
T ss_dssp             CCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHH
Confidence            88999999999998888765 346778888888999999999999998886444333 2378888889999999999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCC-----CCCCHhhHHHHHHHHHhc----------cc
Q 040580          275 REFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHES-----VGPDLVTYGCVVDAYLDK----------RL  339 (412)
Q Consensus       275 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~----------~~  339 (412)
                      ..+++..+.. +.+...+..+...+...|++++|...++++.+..     .......+......+.+.          |+
T Consensus       365 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  443 (537)
T 3fp2_A          365 AFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEK  443 (537)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHH
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhH
Confidence            9999888663 3346678888888899999999999998876532     111122233444566666          88


Q ss_pred             cchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc
Q 040580          340 GRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR  385 (412)
Q Consensus       340 ~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~  385 (412)
                      +++|.+.+++. ...+ .+...+..+...|.+ |++++|.+.+.+...
T Consensus       444 ~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          444 FNAAIKLLTKACELDP-RSEQAKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            99999999888 4332 334556666666666 999999888887544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=3.5e-18  Score=153.89  Aligned_cols=313  Identities=10%  Similarity=-0.006  Sum_probs=254.7

Q ss_pred             cccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      +..+...+.+.|++++|...|+++.+   .+..++..+...+...|++++|...|+++.+.. +-+...+..+...+...
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   84 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQ   84 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHc
Confidence            44556677889999999999998765   367789999999999999999999999998863 33678899999999999


Q ss_pred             CChHHHHHHHHHHHhCCCC---cCHHHHHHH------------HHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           93 GFVLEAQVVWEELLSSSFV---LSVQVLSDL------------MDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~---~~~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      |++++|...|+...+.. +   .+...+..+            ...+...|++++|.+.++++.+.. +.++..+..+..
T Consensus        85 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  162 (359)
T 3ieg_A           85 GKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAE  162 (359)
T ss_dssp             TCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            99999999999999864 3   355556555            588899999999999999998775 567789999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH------------HH
Q 040580          158 CFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIR------------AV  225 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~------------~l  225 (412)
                      .+...|++++|+..+++..+... .+..++..+...+...|++++|...++...+... .+...+.            .+
T Consensus       163 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~  240 (359)
T 3ieg_A          163 CFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIES  240 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988632 3678888999999999999999999999987642 2333333            23


Q ss_pred             HHHHHhcccHHHHHHHHHHHhcCCCCcch---HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHcc
Q 040580          226 SFTYLKERKFFMLGEFLRDVGLGRKDLGN---LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRM  302 (412)
Q Consensus       226 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  302 (412)
                      ...+.+.|++++|.+.+++.....++...   ..+..+...+...|++++|...+++..+.. +.+..++..+...+...
T Consensus       241 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  319 (359)
T 3ieg_A          241 AEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIE  319 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHc
Confidence            66688999999999999987554443211   335567889999999999999999998762 33678899999999999


Q ss_pred             CChhHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHh
Q 040580          303 SMFWDLHLSLEHMKHESVGPD-LVTYGCVVDAYLD  336 (412)
Q Consensus       303 g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~  336 (412)
                      |++++|...|++..+.  .|+ ...+..+..+...
T Consensus       320 g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          320 EMYDEAIQDYEAAQEH--NENDQQIREGLEKAQRL  352 (359)
T ss_dssp             TCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhc--CCCChHHHHHHHHHHHH
Confidence            9999999999998874  454 5555555555443

>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=99.85  E-value=5.5e-19  Score=160.06  Aligned_cols=311  Identities=8%  Similarity=-0.076  Sum_probs=212.1

Q ss_pred             CChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHH-HHHHHHhcCC-CC--CHHhHHHHHHHHHhcCChHHHHHHH
Q 040580           27 KNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQ-LVNTVKSEGL-LP--DNSTLCALMLCYANNGFVLEAQVVW  102 (412)
Q Consensus        27 ~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~-~~~~m~~~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~  102 (412)
                      ..++.+...++.+...+..       ++...|++++|++ .|++...... .|  +...+..+...+.+.|++++|...|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444455555554443322       2334477888887 7776554321 11  3456778888888899999999999


Q ss_pred             HHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 040580          103 EELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV  182 (412)
Q Consensus       103 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  182 (412)
                      +.+.+.. +.+..++..+..++.+.|++++|.+.|+++.+.+ +.++.++..+...+...|++++|...++++.+.... 
T Consensus        88 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-  164 (368)
T 1fch_A           88 EAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-  164 (368)
T ss_dssp             HHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-
Confidence            9988875 5677888888899999999999999999887765 556778888888899999999999999988875432 


Q ss_pred             ChHHHHH---------------HHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHh
Q 040580          183 DSATGNA---------------FIIYYSRFGSLTEMETAYGRLKRSRHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDVG  246 (412)
Q Consensus       183 ~~~~~~~---------------li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~  246 (412)
                      +...+..               .+..+...|++++|...++.+.+..... +..++..+...|...|++++|.+.+++..
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  244 (368)
T 1fch_A          165 YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAAL  244 (368)
T ss_dssp             TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            1122211               2333448888999999998888764322 57888888888889999999998888764


Q ss_pred             cCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCC-----
Q 040580          247 LGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVG-----  321 (412)
Q Consensus       247 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-----  321 (412)
                      ...++ +..+|..+...|...|++++|...|++..+.. +.+..++..+...+.+.|++++|...++++.+....     
T Consensus       245 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  322 (368)
T 1fch_A          245 SVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPR  322 (368)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC----
T ss_pred             HhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCcc
Confidence            43333 34788888999999999999999999888653 334678888888999999999999999887652111     


Q ss_pred             -----CCHhhHHHHHHHHHhccccchHHHHHHh
Q 040580          322 -----PDLVTYGCVVDAYLDKRLGRNLDFGLSK  349 (412)
Q Consensus       322 -----p~~~~~~~li~~~~~~~~~~~a~~~~~~  349 (412)
                           ....+|..+..+|.+.|+.++|..+++.
T Consensus       323 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          323 GEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             --CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             ccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence                 1257888888889899999888888764

>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=99.84  E-value=1e-17  Score=149.14  Aligned_cols=285  Identities=10%  Similarity=-0.087  Sum_probs=211.2

Q ss_pred             cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 040580           42 EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM  121 (412)
Q Consensus        42 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  121 (412)
                      .+...+..+...+...|++++|.++|+++.+.. +.+...+..++..+...|++++|..+++.+.+.. +.+..++..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            356667777888888899999999998887764 3355667777788888899999999998888764 55677888888


Q ss_pred             HHHHccC-CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH
Q 040580          122 DAYGRIG-CFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSL  200 (412)
Q Consensus       122 ~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  200 (412)
                      ..+...| ++++|.+.|++..+.. +.++..|..+...+...|++++|+..|++..+.... +...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhH
Confidence            8888888 8899999998887654 445668888888888899999999999888775322 345666688888888899


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC--------CCcchHHHHHHHHHHhcCCChHH
Q 040580          201 TEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR--------KDLGNLLWNLLLLSYAGNFKMKS  272 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~  272 (412)
                      ++|...++...+.. +.+..++..+...+...|++++|.+.+++.....        ......++..+...|...|++++
T Consensus       176 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          176 KLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            99988888887764 3456777778888888888888888777653211        01123677777778888888888


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHH
Q 040580          273 LQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAY  334 (412)
Q Consensus       273 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~  334 (412)
                      |...|++..+.. +.+...+..+...+.+.|++++|...+++..+.  .| +...+..+..++
T Consensus       255 A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          255 ALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGL--RRDDTFSVTMLGHCI  314 (330)
T ss_dssp             HHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT--CSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc--CCCchHHHHHHHHHH
Confidence            888888777653 234566777777777788888888777776543  34 455555555555

>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=99.84  E-value=9.8e-18  Score=149.24  Aligned_cols=288  Identities=8%  Similarity=-0.100  Sum_probs=221.4

Q ss_pred             CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH
Q 040580           75 LLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR  154 (412)
Q Consensus        75 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  154 (412)
                      .+.+...+..+...+...|++++|..+++.+.+.. +.+...+..++.++.+.|++++|..+++++.+.. +.++..|..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            35566777888888889999999999999998865 5566777778888899999999999999998765 556778888


Q ss_pred             HHHHHHhcC-ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcc
Q 040580          155 AISCFGKQG-QLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKER  233 (412)
Q Consensus       155 li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  233 (412)
                      +...+...| ++++|...|++..+.... +...+..+...+...|++++|...++...+... .+...+..+...|...|
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHh
Confidence            999999999 899999999998876422 467788888999999999999999999887652 24566777888888899


Q ss_pred             cHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC--------CCCcHhHHHHHHHHHHccCCh
Q 040580          234 KFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG--------FHPDLTTFNIRAVAFSRMSMF  305 (412)
Q Consensus       234 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--------~~p~~~~~~~ll~~~~~~g~~  305 (412)
                      ++++|.+.+++.....+. +..++..+...+...|++++|...+++..+..        .+.+..++..+...+...|++
T Consensus       174 ~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          174 NSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             CHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            999999988886554443 35788888888888999999998888877531        122356778888888888888


Q ss_pred             hHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHH
Q 040580          306 WDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAF  368 (412)
Q Consensus       306 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~  368 (412)
                      ++|...+++..+... .+...+..+...|.+.|++++|.+.+++...-.+.+...+..+..++
T Consensus       253 ~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          253 AEALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCI  314 (330)
T ss_dssp             HHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHH
Confidence            888888888776432 25667777888888888888888888887322222344444454555

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=1.5e-20  Score=181.29  Aligned_cols=148  Identities=18%  Similarity=0.165  Sum_probs=114.5

Q ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHh---cCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          219 KEGIRAVSFTYLKERKFFMLGEFLRDVG---LGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       219 ~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                      ..||++||++||+.|++++|.++|.+|.   ..+..||..|||+||.+|++.|++++|.++|++|.+.|+.||..|||++
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            3456666666666666666666665543   2345567789999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCh-hHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCC------cccHHHHHHHH
Q 040580          296 AVAFSRMSMF-WDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPV------VSTDPYVFEAF  368 (412)
Q Consensus       296 l~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~------~~~~~~li~~~  368 (412)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|++++.++.+.    .+.+..+++..+..|+      ..+...|.+.|
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhCcccCCCCCCcccccchHHHHHHH
Confidence            9999999985 78899999999999999999999998877665    4555666663333333      55666777777


Q ss_pred             hc
Q 040580          369 GK  370 (412)
Q Consensus       369 ~~  370 (412)
                      .+
T Consensus       283 s~  284 (1134)
T 3spa_A          283 AK  284 (1134)
T ss_dssp             CC
T ss_pred             cc
Confidence            75

>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=99.83  E-value=3.7e-18  Score=154.61  Aligned_cols=288  Identities=9%  Similarity=-0.087  Sum_probs=228.3

Q ss_pred             cccCCCChHHHHH-HHHHhhc---c----ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC
Q 040580           22 HQTHPKNGDLARK-IIRYRKQ---E----GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG   93 (412)
Q Consensus        22 ~~~~~~~~~~A~~-~~~~~~~---~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~   93 (412)
                      .+.-.|++++|.. .+++...   .    +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            4556688899988 8875433   1    35668889999999999999999999999874 457888999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHH---------------HHHH
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSR---------------AISC  158 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---------------li~~  158 (412)
                      ++++|...|+.+.+.+ +.+..++..+..++...|++++|.+.|+++.... +.++..+..               .+..
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGS  190 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHH
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHH
Confidence            9999999999999876 6688999999999999999999999999998765 333333321               2444


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFM  237 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  237 (412)
                      +...|++++|...|+++.+..... +..++..+...+.+.|++++|...++...+.. +.+..++..+...+...|++++
T Consensus       191 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  269 (368)
T 1fch_A          191 LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEE  269 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHH
Confidence            458999999999999998864321 47888899999999999999999999998764 3468899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC---C-------cHhHHHHHHHHHHccCChhH
Q 040580          238 LGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFH---P-------DLTTFNIRAVAFSRMSMFWD  307 (412)
Q Consensus       238 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---p-------~~~~~~~ll~~~~~~g~~~~  307 (412)
                      |.+.+++.....++ +..++..+...|.+.|++++|...|++..+..-.   |       ...+|..+..++...|+.++
T Consensus       270 A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  348 (368)
T 1fch_A          270 AVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDA  348 (368)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGG
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHh
Confidence            99999986544333 3588999999999999999999999998754211   1       15789999999999999999


Q ss_pred             HHHHHHH
Q 040580          308 LHLSLEH  314 (412)
Q Consensus       308 a~~~~~~  314 (412)
                      |..++.+
T Consensus       349 A~~~~~~  355 (368)
T 1fch_A          349 YGAADAR  355 (368)
T ss_dssp             HHHHHTT
T ss_pred             HHHhHHH
Confidence            9988763

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=1.3e-20  Score=181.76  Aligned_cols=168  Identities=13%  Similarity=0.035  Sum_probs=129.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHh---hcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHH
Q 040580          113 SVQVLSDLMDAYGRIGCFNEIISIIDQVS---CRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNA  189 (412)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  189 (412)
                      -..|||+||++|++.|++++|.++|++|.   ..|+.||..|||+||.+||+.|++++|.++|++|.+.|+.||.+||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            45689999999999999999999998875   357889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC-cchHHHHHHHHHHhcC
Q 040580          190 FIIYYSRFGS-LTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD-LGNLLWNLLLLSYAGN  267 (412)
Q Consensus       190 li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~  267 (412)
                      +|.++++.|+ .+.|.++|++|.+.|+.||..+|++++.+..+.+-++.+.++...+...... +...+...|.+.|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d  285 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD  285 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccC
Confidence            9999999987 4788899999999999999999999988777765555554443333322111 1123445556666665


Q ss_pred             C---------ChHHHHHHHHHH
Q 040580          268 F---------KMKSLQREFMRM  280 (412)
Q Consensus       268 g---------~~~~a~~~~~~m  280 (412)
                      +         ..++-...|++-
T Consensus       286 ~~~s~pk~~~~~~~L~~~~~~Q  307 (1134)
T 3spa_A          286 GRVSYPKLHLPLKTLQCLFEKQ  307 (1134)
T ss_dssp             SCCCCCCCSSCHHHHHHHHHHH
T ss_pred             CCCcCccccCCHHHHHHHHHHH
Confidence            5         235555566543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=7.8e-18  Score=152.46  Aligned_cols=265  Identities=8%  Similarity=-0.066  Sum_probs=160.4

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      ...+..+...+.+.|++++|..+|+.+.+.. +.+..+|..+..++.+.|++++|.+.|+++.+.+ +.++.+|..+...
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3445555566666666666666666666543 4455666666666666666666666666665543 3345566666666


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCC-----------hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVD-----------SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHL-IDKEGIRAVS  226 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~-----------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li  226 (412)
                      |...|++++|+..|+++.+..  |+           ...+..+...+.+.|++++|...++++.+.... ++..++..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            666666666666666665431  21           112233455666666777777777666655322 1466666667


Q ss_pred             HHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChh
Q 040580          227 FTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFW  306 (412)
Q Consensus       227 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~  306 (412)
                      ..|...|++++|.+.+++.....++ +..+|+.+...|...|++++|+..|++..+.. +.+..++..+...|.+.|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            7777777777777776664333332 34677778888888888888888888777652 223667777778888888888


Q ss_pred             HHHHHHHHHHhCC---CC--------CCHhhHHHHHHHHHhccccchHHHHHHh
Q 040580          307 DLHLSLEHMKHES---VG--------PDLVTYGCVVDAYLDKRLGRNLDFGLSK  349 (412)
Q Consensus       307 ~a~~~~~~m~~~g---~~--------p~~~~~~~li~~~~~~~~~~~a~~~~~~  349 (412)
                      +|...|+++.+..   ..        .+...|..+..++...|+.+.+.++.+.
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            8888887776521   01        1356777888888888888777777654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=8.9e-18  Score=152.05  Aligned_cols=263  Identities=10%  Similarity=-0.050  Sum_probs=155.5

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...|..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|...|+++.+.. +.+..++..+..+
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3446666666666777777777777766653 3356666666777777777777777777766653 4456666777777


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHH----------HHHHHHhcCChHHHHHHHHHHHHCCCC-CChHHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSR----------AISCFGKQGQLELMENTLKEMVSRGFS-VDSATGNAFII  192 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~----------li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~  192 (412)
                      |.+.|++++|.+.|+++.+.. +.++..+..          +...+...|++++|+..|+++.+.... ++..++..+..
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            777777777777777665533 111223322          255666667777777777766664322 13556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHH
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKS  272 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  272 (412)
                      .+.+.|++++|...+++..+.. +.+..++..+..+|...|++++|.+.+++.....++ +..+|..+...|...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCHHH
Confidence            6667777777777776666543 235666666777777777777777776665333332 24666666677777777777


Q ss_pred             HHHHHHHHHHcC---CCC--------cHhHHHHHHHHHHccCChhHHHHH
Q 040580          273 LQREFMRMSEAG---FHP--------DLTTFNIRAVAFSRMSMFWDLHLS  311 (412)
Q Consensus       273 a~~~~~~m~~~~---~~p--------~~~~~~~ll~~~~~~g~~~~a~~~  311 (412)
                      |...|++..+..   ..|        +...|..+..++...|+.+.+..+
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  349 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAA  349 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            777776665431   000        244566666666666666655543

>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=99.80  E-value=5.2e-18  Score=152.01  Aligned_cols=284  Identities=11%  Similarity=0.004  Sum_probs=130.9

Q ss_pred             cCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           24 THPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWE  103 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  103 (412)
                      -+.|++++|.++++++..|+  +|..+..++.+.|++++|++.|.+      .+|..+|..++.++...|++++|..+++
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            47788999999999996664  899999999999999999999965      3588899999999999999999999887


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 040580          104 ELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD  183 (412)
Q Consensus       104 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  183 (412)
                      ..++.  .+++.+.+.|+.+|.+.|+++++.++++       .|+..+|+.+...|...|.+++|...|..+        
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------  148 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------  148 (449)
T ss_dssp             -------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT--------
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh--------
Confidence            77764  5668889999999999999999988885       366679999999999999999999999977        


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 040580          184 SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLS  263 (412)
Q Consensus       184 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  263 (412)
                       ..|..+..++.+.|++++|.+.++.+      .++.+|..++.+|...|+++.|......+.   ..  +.-...++..
T Consensus       149 -~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~--ad~l~~lv~~  216 (449)
T 1b89_A          149 -SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VH--ADELEELINY  216 (449)
T ss_dssp             -TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TC--HHHHHHHHHH
T ss_pred             -hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hC--HhhHHHHHHH
Confidence             47999999999999999999999988      378999999999999999999966555432   22  2445578899


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHH-hCCCCC------CHhhHHHHHHHHHh
Q 040580          264 YAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK-HESVGP------DLVTYGCVVDAYLD  336 (412)
Q Consensus       264 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~-~~g~~p------~~~~~~~li~~~~~  336 (412)
                      |.+.|++++|..+++...... +-....|+-+--+|++-+ +++..+-++... +-+++|      +...|..++-.|..
T Consensus       217 Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~-p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~  294 (449)
T 1b89_A          217 YQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDK  294 (449)
T ss_dssp             HHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcC-HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999887443 334667777777777653 344433333322 223444      46678888888888


Q ss_pred             ccccchHHHH
Q 040580          337 KRLGRNLDFG  346 (412)
Q Consensus       337 ~~~~~~a~~~  346 (412)
                      .++++.|...
T Consensus       295 ~~e~d~A~~t  304 (449)
T 1b89_A          295 YEEYDNAIIT  304 (449)
T ss_dssp             TTCHHHHHHH
T ss_pred             hchHHHHHHH
Confidence            8888766554

>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=9.4e-17  Score=142.63  Aligned_cols=264  Identities=9%  Similarity=-0.063  Sum_probs=158.0

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...+..+...+...|++++|..+|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            44456667777888888888888888887753 3367777788888888888888888888887764 556778888888


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHH--------------HH-HHHhcCChHHHHHHHHHHHHCCCCCChHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRA--------------IS-CFGKQGQLELMENTLKEMVSRGFSVDSATG  187 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  187 (412)
                      .+...|++++|.+.++++.+.. +.++..+..+              .. .+...|++++|...++++.+.... +...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHH
Confidence            8888888888888888887653 2223333333              11 255666677777777766654321 45566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN  267 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  267 (412)
                      ..+...+.+.|++++|...++.+.+.. +.+..++..+...+...|++++|.+.+++.....++ +..++..+...|...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHh
Confidence            666666667777777777776665543 223445555555555555555555555543222221 224455555555555


Q ss_pred             CChHHHHHHHHHHHHcCCCC-----------cHhHHHHHHHHHHccCChhHHHHHH
Q 040580          268 FKMKSLQREFMRMSEAGFHP-----------DLTTFNIRAVAFSRMSMFWDLHLSL  312 (412)
Q Consensus       268 g~~~~a~~~~~~m~~~~~~p-----------~~~~~~~ll~~~~~~g~~~~a~~~~  312 (412)
                      |++++|...|++..+..-.+           +..++..+..++.+.|+.++|..++
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  309 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTY  309 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            55555555555544321110           2334444455555555555554444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=1.1e-14  Score=137.07  Aligned_cols=351  Identities=10%  Similarity=-0.029  Sum_probs=264.4

Q ss_pred             HHHHHHhh-ccChhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHH
Q 040580           33 RKIIRYRK-QEGFVDCASLVEDLGR----KKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN----NGFVLEAQVVWE  103 (412)
Q Consensus        33 ~~~~~~~~-~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~  103 (412)
                      ...++... ..+..++..+...|..    .+++++|+..|++..+.|   +...+..|...|..    .+++++|...|+
T Consensus        27 ~~~~~~~a~~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~  103 (490)
T 2xm6_A           27 LEQLKQKAESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYK  103 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            44444433 3477778888887877    788999999999888765   67778888888888    889999999999


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHH
Q 040580          104 ELLSSSFVLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK----QGQLELMENTLKEM  175 (412)
Q Consensus       104 ~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m  175 (412)
                      ...+.|   +...+..|...|..    .+++++|.+.|++..+.+   ++..+..+...|..    .+++++|+..|++.
T Consensus       104 ~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a  177 (490)
T 2xm6_A          104 KAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKA  177 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            988865   56677778888887    788999999999887765   45677777777776    78899999999988


Q ss_pred             HHCCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cccHHHHHHHHHHHhc
Q 040580          176 VSRGFSVDSATGNAFIIYYSR----FGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLK----ERKFFMLGEFLRDVGL  247 (412)
Q Consensus       176 ~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~  247 (412)
                      .+.|   +...+..+...|.+    .++.++|...|+...+.|   ++..+..+...|..    .+++++|.+.+++...
T Consensus       178 ~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~  251 (490)
T 2xm6_A          178 AEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE  251 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT
T ss_pred             HHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            8764   56677777777777    789999999999888765   56777777777776    7889999999988655


Q ss_pred             CCCCcchHHHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHcc-----CChhHHHHHHHHHHhC
Q 040580          248 GRKDLGNLLWNLLLLSYAG----NFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRM-----SMFWDLHLSLEHMKHE  318 (412)
Q Consensus       248 ~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~  318 (412)
                      .+   +...+..+...|..    .++.++|+..|++..+.|   +...+..+...|...     ++.++|...+++..+.
T Consensus       252 ~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~  325 (490)
T 2xm6_A          252 QG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ  325 (490)
T ss_dssp             TT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT
T ss_pred             CC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc
Confidence            43   23667777777776    789999999999888654   445666677777776     8899999999888876


Q ss_pred             CCCCCHhhHHHHHHHHHhcc---ccchHHHHHHhc-cCCCCCCcccHHHHHHHHh-----cCCcccHHHHHHHhcc-Cch
Q 040580          319 SVGPDLVTYGCVVDAYLDKR---LGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFG-----KGDFHSSSEAFLEFKR-QRK  388 (412)
Q Consensus       319 g~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~-----~~~~~~a~~~~~~~~~-~~~  388 (412)
                      |   +...+..+-..|...|   +.++|.+.+++. ..+   +...+..+-..|.     .++.++|.+.+.+... .++
T Consensus       326 ~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~  399 (490)
T 2xm6_A          326 G---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLS  399 (490)
T ss_dssp             T---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             C---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCH
Confidence            5   3445566666666645   778888888887 432   2233333444443     3778888888887555 578


Q ss_pred             HHHHHHHHHHHH----cCcccccccc
Q 040580          389 WTYRKLIAVYLK----KQLRRNQIFW  410 (412)
Q Consensus       389 ~~~~~l~~~~~~----~g~~~~a~~w  410 (412)
                      ..+..|...|.+    .++.++|..|
T Consensus       400 ~a~~~Lg~~y~~g~g~~~d~~~A~~~  425 (490)
T 2xm6_A          400 AAQVQLGEIYYYGLGVERDYVQAWAW  425 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            888889999988    7888888655

>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=99.78  E-value=6.7e-17  Score=143.58  Aligned_cols=267  Identities=12%  Similarity=-0.004  Sum_probs=216.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      +...+..+...+...|++++|..+|+.+.+.. +.+..++..+..++.+.|++++|.+.|+++.+.. +.++.++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            34556777888999999999999999999875 5678899999999999999999999999998775 556779999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHH--------------HH-HHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 040580          158 CFGKQGQLELMENTLKEMVSRGFSVDSATGNAF--------------II-YYSRFGSLTEMETAYGRLKRSRHLIDKEGI  222 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  222 (412)
                      .+...|++++|...+++..+.... +...+..+              .. .+...|++++|...++.+.+.. +.+..++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            999999999999999999886322 22233222              22 3677889999999999988765 3378889


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHcc
Q 040580          223 RAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRM  302 (412)
Q Consensus       223 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  302 (412)
                      ..+...|...|++++|.+.+++.....++ +..++..+...+...|++++|...|++..+.. +.+..++..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            99999999999999999999986544433 35788999999999999999999999988653 33577888899999999


Q ss_pred             CChhHHHHHHHHHHhCCCCC-----------CHhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          303 SMFWDLHLSLEHMKHESVGP-----------DLVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       303 g~~~~a~~~~~~m~~~g~~p-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      |++++|...+++..+....+           +...+..+..++.+.|+.++|.+++++.
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            99999999999887643221           4678888889999999999998888655

>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=99.78  E-value=4.9e-17  Score=145.75  Aligned_cols=351  Identities=9%  Similarity=0.011  Sum_probs=174.7

Q ss_pred             hhhccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh
Q 040580           12 FKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN   91 (412)
Q Consensus        12 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~   91 (412)
                      .+..|..+..++.+.|++++|...|.+  .+|...|..++..+...|++++|+..++...+.  .+++.+.+.++.+|.+
T Consensus        31 ~~~vWs~La~A~l~~g~~~eAIdsfik--a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~K  106 (449)
T 1b89_A           31 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAK  106 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHc--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHH
Confidence            346788999999999999999999965  467779999999999999999999977776664  5568889999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENT  171 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  171 (412)
                      .|+++++.++++       .|+..+|+.+...|...|++++|...|..+         ..|..++.++.+.|++++|.+.
T Consensus       107 lg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea  170 (449)
T 1b89_A          107 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDG  170 (449)
T ss_dssp             --CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHH
T ss_pred             hCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHH
Confidence            999999998884       478889999999999999999999999977         3799999999999999999999


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC
Q 040580          172 LKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD  251 (412)
Q Consensus       172 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  251 (412)
                      +.++      .++.+|..++.+|...|+++.|......     +..++.-...++..|.+.|.+++|..+++..-... +
T Consensus       171 ~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~  238 (449)
T 1b89_A          171 ARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-R  238 (449)
T ss_dssp             HHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-T
T ss_pred             HHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-H
Confidence            9988      2789999999999999999999555443     33455556679999999999999999999853332 2


Q ss_pred             cchHHHHHHHHHHhcC--CChHHHHHHHHHHHHcCCCC------cHhHHHHHHHHHHccCChhHHHHHHHHHHhC-CC--
Q 040580          252 LGNLLWNLLLLSYAGN--FKMKSLQREFMRMSEAGFHP------DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHE-SV--  320 (412)
Q Consensus       252 ~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~~~~p------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-g~--  320 (412)
                      .-...|+-|-.+|++-  ++..+.++.|..  .-+++|      +...|..+.-.|...++++.|...   |.++ ..  
T Consensus       239 ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h~~~a~  313 (449)
T 1b89_A          239 AHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNHPTDAW  313 (449)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHSTTTTC
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhCChhhh
Confidence            2357888888888876  455556555542  223333      456788888889999999988763   3333 12  


Q ss_pred             -----------CCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhccCc-
Q 040580          321 -----------GPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKRQR-  387 (412)
Q Consensus       321 -----------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~~~-  387 (412)
                                 ..+...|-..+.-|. ...+...-.++.-+.....     .+.++..+.+ |...-+...+..+.+.| 
T Consensus       314 ~~~~f~~~~~kv~n~elyYkai~fyl-~~~p~~l~~ll~~l~~~ld-----~~r~v~~~~~~~~l~l~~~yl~~v~~~n~  387 (449)
T 1b89_A          314 KEGQFKDIITKVANVELYYRAIQFYL-EFKPLLLNDLLMVLSPRLD-----HTRAVNYFSKVKQLPLVKPYLRSVQNHNN  387 (449)
T ss_dssp             CHHHHHHHHHHCSSTHHHHHHHHHHH-HHCGGGHHHHHHHHGGGCC-----HHHHHHHHHHTTCTTTTHHHHHHHHTTCC
T ss_pred             hhHHHHHHHhchhHHHHHHHHHHHHH-hcCHHHHHHHHHHHHhccC-----cHHHHHHHHHcCCcHHHHHHHHHHHHhhH
Confidence                       123445544554444 2233333333333322221     2445566666 77777777776666644 


Q ss_pred             hHHHHHHHHHHHHcCccc
Q 040580          388 KWTYRKLIAVYLKKQLRR  405 (412)
Q Consensus       388 ~~~~~~l~~~~~~~g~~~  405 (412)
                      ..+-.++-+-|....|++
T Consensus       388 ~~vnealn~l~ieeed~~  405 (449)
T 1b89_A          388 KSVNESLNNLFITEEDYQ  405 (449)
T ss_dssp             HHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhhhhHH
Confidence            333444444555555543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=8.8e-16  Score=134.09  Aligned_cols=244  Identities=10%  Similarity=-0.020  Sum_probs=129.6

Q ss_pred             CCCChHHHHHHHHHhhccC----hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           25 HPKNGDLARKIIRYRKQEG----FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        25 ~~~~~~~A~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      ..|++..|+..++.....+    ......+.+++...|+++.|+..++.   . -+|+..++..+...+...++.++|.+
T Consensus        11 ~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~   86 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVA   86 (291)
T ss_dssp             HTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHH
Confidence            3566666666665544322    12334455666666666666655433   1 24455556666666666666666666


Q ss_pred             HHHHHHhCCCCc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 040580          101 VWEELLSSSFVL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRG  179 (412)
Q Consensus       101 ~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  179 (412)
                      .++.+...+..| +...+..+...+...|++++|++.+++      +.++..+..+...+.+.|++++|...|+++.+..
T Consensus        87 ~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  160 (291)
T 3mkr_A           87 ELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD  160 (291)
T ss_dssp             HHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            666666554323 445555555666666666666666665      3445566666666666666666666666666542


Q ss_pred             CCCChHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHH
Q 040580          180 FSVDSATG---NAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLL  256 (412)
Q Consensus       180 ~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  256 (412)
                        |+....   ..++..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|.+.+++.-...++ +..+
T Consensus       161 --p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~-~~~~  236 (291)
T 3mkr_A          161 --EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSG-HPET  236 (291)
T ss_dssp             --TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             --cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHH
Confidence              332211   112223333456666666666665542 334555555555555555555555555553222221 2244


Q ss_pred             HHHHHHHHhcCCChHH-HHHHHHHHHH
Q 040580          257 WNLLLLSYAGNFKMKS-LQREFMRMSE  282 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~-a~~~~~~m~~  282 (412)
                      +..++..+...|+.++ +.++++++.+
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            5555555555555443 3445555443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=8.2e-16  Score=134.26  Aligned_cols=274  Identities=10%  Similarity=-0.041  Sum_probs=189.9

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCH--HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDN--STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG  128 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  128 (412)
                      |+.....|+++.|+..++.....  .|+.  .....+.++|...|+++.|...++.   . -+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCC
Confidence            34455678888888888766543  3443  3556677888889998888876644   2 3677788888888888888


Q ss_pred             CHHHHHHHHHHHhhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Q 040580          129 CFNEIISIIDQVSCRNADL-LPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAY  207 (412)
Q Consensus       129 ~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  207 (412)
                      +.++|.+.++++...+..| ++..+..+...+...|++++|++.+++      ..+...+..+...+.+.|++++|...+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999887665433 455777777888889999999988877      346677888888888999999999999


Q ss_pred             HHHHhCCCCCCHHH---HHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 040580          208 GRLKRSRHLIDKEG---IRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG  284 (412)
Q Consensus       208 ~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  284 (412)
                      +.+.+..  |+...   ....+..+...|++++|..+|+++....++ +...++.+..++.+.|++++|...|++..+..
T Consensus       154 ~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSP-TLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888764  44221   122333344457888888888876554333 45778888888888888888888888877652


Q ss_pred             CCCcHhHHHHHHHHHHccCChhH-HHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHH
Q 040580          285 FHPDLTTFNIRAVAFSRMSMFWD-LHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDF  345 (412)
Q Consensus       285 ~~p~~~~~~~ll~~~~~~g~~~~-a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~  345 (412)
                       +-+..++..++..+...|+.++ +.++++++.+  +.|+...   +.+...+.+.++++..
T Consensus       231 -p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          231 -SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHH---HHHHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCChH---HHHHHHHHHHHHHHHH
Confidence             2246677777777777787765 5677777665  3444322   2333444555554443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.74  E-value=8.8e-14  Score=131.01  Aligned_cols=342  Identities=9%  Similarity=-0.029  Sum_probs=275.5

Q ss_pred             ccccccccC----CCChHHHHHHHHHhhcc-ChhhHHHHHHHHhc----CCChhHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 040580           17 FNVPSHQTH----PKNGDLARKIIRYRKQE-GFVDCASLVEDLGR----KKKPHLAHQLVNTVKSEGLLPDNSTLCALML   87 (412)
Q Consensus        17 ~~l~~~~~~----~~~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~   87 (412)
                      ..+...|..    .+++++|...|++..+. +..++..+...|..    .+++++|.+.|++..+.|   +...+..|..
T Consensus        43 ~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~  119 (490)
T 2xm6_A           43 LELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGV  119 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            334444544    88999999999987654 77788888888888    899999999999998875   6778888888


Q ss_pred             HHHh----cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           88 CYAN----NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        88 ~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      .|..    .+++++|...|+...+.|   +...+..|...|..    .++.++|.+.|++..+.+   ++..+..+...|
T Consensus       120 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y  193 (490)
T 2xm6_A          120 MYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMY  193 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            8888    889999999999999876   56778888888887    789999999999998764   567888888888


Q ss_pred             Hh----cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 040580          160 GK----QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSR----FGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLK  231 (412)
Q Consensus       160 ~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  231 (412)
                      ..    .+++++|...|++..+.|   +...+..+...|..    .++.++|...|+...+.|   +...+..+...|..
T Consensus       194 ~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~  267 (490)
T 2xm6_A          194 SRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQ  267 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHH
T ss_pred             hcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHC
Confidence            87    899999999999998865   45667777777775    789999999999998865   56677777777877


Q ss_pred             ----cccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC-----CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHcc
Q 040580          232 ----ERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN-----FKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRM  302 (412)
Q Consensus       232 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  302 (412)
                          .+++++|.+.+++....+   +..++..+...|...     +++++|+..|++..+.|   +...+..+...|...
T Consensus       268 g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~  341 (490)
T 2xm6_A          268 GLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRL  341 (490)
T ss_dssp             TTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHS
T ss_pred             CCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Confidence                899999999999876543   347788888888877     89999999999998865   445666777777765


Q ss_pred             C---ChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----ccccchHHHHHHhc-cCCCCCCcccHHHHHHHHh-----
Q 040580          303 S---MFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD----KRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFG-----  369 (412)
Q Consensus       303 g---~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~-----  369 (412)
                      |   +.++|.+.|++..+.|   +...+..+-..|..    .+++++|.+.+++. ..+.   ...+..+-..|.     
T Consensus       342 g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~---~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          342 GSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGL---SAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             CCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSS
T ss_pred             CCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCCC
Confidence            6   7889999999988864   56677788888888    78999999999998 4432   233444444443     


Q ss_pred             cCCcccHHHHHHHhcc
Q 040580          370 KGDFHSSSEAFLEFKR  385 (412)
Q Consensus       370 ~~~~~~a~~~~~~~~~  385 (412)
                      .++.++|.+.+.+...
T Consensus       416 ~~d~~~A~~~~~~A~~  431 (490)
T 2xm6_A          416 ERDYVQAWAWFDTAST  431 (490)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            4888999999987554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=1e-14  Score=138.73  Aligned_cols=388  Identities=7%  Similarity=-0.065  Sum_probs=272.4

Q ss_pred             CCchhhccccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHH
Q 040580            9 HGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCAL   85 (412)
Q Consensus         9 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l   85 (412)
                      ++.....+..++. +.+.|++++|+.+|+++.+.   +...|..++..+.+.|++++|..+|++....  .|+...|...
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~   85 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCY   85 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHH
Confidence            4444455666676 46789999999999998763   6677999999999999999999999999976  4788888777


Q ss_pred             HHHH-HhcCChHHHHH----HHHHHHh-CCCC-cCHHHHHHHHHHHHc---------cCCHHHHHHHHHHHhhcCCCCC-
Q 040580           86 MLCY-ANNGFVLEAQV----VWEELLS-SSFV-LSVQVLSDLMDAYGR---------IGCFNEIISIIDQVSCRNADLL-  148 (412)
Q Consensus        86 l~~~-~~~~~~~~a~~----~~~~m~~-~~~~-~~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~~~-  148 (412)
                      +... ...|+.+.|.+    +|+..++ .|.. ++...|...+....+         .|+++.|..+|++..+.  +.. 
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~--P~~~  163 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN--PMIN  163 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS--CCTT
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc--hhhh
Confidence            7533 45677777665    7777655 3543 457788888887655         68999999999999862  222 


Q ss_pred             -HHhHHHHHHHH-------------HhcCChHHHHHHHHHHH------HCC---CCCC--------hHHHHHHHHHHHhc
Q 040580          149 -PEVYSRAISCF-------------GKQGQLELMENTLKEMV------SRG---FSVD--------SATGNAFIIYYSRF  197 (412)
Q Consensus       149 -~~~~~~li~~~-------------~~~g~~~~a~~~~~~m~------~~g---~~p~--------~~~~~~li~~~~~~  197 (412)
                       ...|.......             .+.++++.|..++.+..      +..   +.|+        ...|...+......
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             12443322211             13456777877777632      221   2343        23455544333221


Q ss_pred             ----CCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cccHH-------HHHHHHHHHhc-CCCCcch
Q 040580          198 ----GSL----TEMETAYGRLKRSRHLIDKEGIRAVSFTYLK-------ERKFF-------MLGEFLRDVGL-GRKDLGN  254 (412)
Q Consensus       198 ----g~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~~~~-~~~~~~~  254 (412)
                          ++.    ..+..+|++..... +.++..|..+...+.+       .|+++       +|.+++++... ..++ +.
T Consensus       244 ~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~-~~  321 (530)
T 2ooe_A          244 PLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK-NM  321 (530)
T ss_dssp             SSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSS-CH
T ss_pred             CccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcc-cH
Confidence                232    36778888887753 4478888888888876       68877       89999998754 2222 45


Q ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH--hHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 040580          255 LLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDL--TTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVD  332 (412)
Q Consensus       255 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  332 (412)
                      ..|..++..+.+.|++++|..+|++..+.  .|+.  ..|..++..+.+.|++++|..+|++..+... .+...|.....
T Consensus       322 ~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~  398 (530)
T 2ooe_A          322 LLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAAL  398 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHH
Confidence            88999999999999999999999999974  5653  4788888888899999999999999876422 12222322221


Q ss_pred             -HHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc---Cc----hHHHHHHHHHHHHcC
Q 040580          333 -AYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR---QR----KWTYRKLIAVYLKKQ  402 (412)
Q Consensus       333 -~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~---~~----~~~~~~l~~~~~~~g  402 (412)
                       .+...|+.++|.++|+.. +..+ .+...+..++..+.+ |+.++|..+|++...   .+    ...|...+....+.|
T Consensus       399 ~~~~~~~~~~~A~~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G  477 (530)
T 2ooe_A          399 MEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIG  477 (530)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSS
T ss_pred             HHHHHcCChhHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcC
Confidence             233589999999999987 4322 234556677777766 999999999988644   13    337888888888889


Q ss_pred             ccccc
Q 040580          403 LRRNQ  407 (412)
Q Consensus       403 ~~~~a  407 (412)
                      +.+.+
T Consensus       478 ~~~~~  482 (530)
T 2ooe_A          478 DLASI  482 (530)
T ss_dssp             CHHHH
T ss_pred             CHHHH
Confidence            87766

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.71  E-value=7.8e-14  Score=130.62  Aligned_cols=353  Identities=8%  Similarity=-0.042  Sum_probs=242.4

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhc-----C---CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC-----C
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSE-----G---LLPDNSTLCALMLCYANNGFVLEAQVVWEELLSS-----S  109 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~  109 (412)
                      ....||.+...+...|+.++|++.|++..+.     +   -+....+|+.+..+|...|++++|...+++..+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4567999999999999999999999887541     1   1234678999999999999999999999887652     1


Q ss_pred             -C-CcCHHHHHHHHHHHHcc--CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH---HHhcCChHHHHHHHHHHHHCCCCC
Q 040580          110 -F-VLSVQVLSDLMDAYGRI--GCFNEIISIIDQVSCRNADLLPEVYSRAISC---FGKQGQLELMENTLKEMVSRGFSV  182 (412)
Q Consensus       110 -~-~~~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~g~~p  182 (412)
                       . .....++..+..++.+.  +++++|.+.|++..+.+ +-++..+..+...   +...++.++|++.+++..+.  .|
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l--~p  206 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL--NP  206 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH--CS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc--CC
Confidence             1 12356677666666554  57899999999998765 4556666655444   44567888999999888775  34


Q ss_pred             -ChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHH
Q 040580          183 -DSATGNAFIIYYSR----FGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLW  257 (412)
Q Consensus       183 -~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  257 (412)
                       +...+..+...+..    .|+.++|...+++..... +.+..++..+...|...|++++|.+.+++.....++ +..++
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~  284 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLH  284 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHH
Confidence             44555555555544    467889999999887765 446788999999999999999999999987555444 34667


Q ss_pred             HHHHHHHhcC-------------------CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhC
Q 040580          258 NLLLLSYAGN-------------------FKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHE  318 (412)
Q Consensus       258 ~~li~~~~~~-------------------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  318 (412)
                      ..+...|...                   +..+.|...|++..+.. +.+..++..+...+...|++++|...|++..+.
T Consensus       285 ~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            7666655322                   23567788888777653 334677888999999999999999999998876


Q ss_pred             CCCCCHh--hHHHHHH-HHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhcCCcccHHHHHHHhccCchHHHHHH
Q 040580          319 SVGPDLV--TYGCVVD-AYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKRQRKWTYRKL  394 (412)
Q Consensus       319 g~~p~~~--~~~~li~-~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~~~~~~~~~l  394 (412)
                      ...|...  .+..+.. .....|+.++|.+.+++. ...  |+.......+..+     ....+...+..|.++.+|..+
T Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~--~~~~~~~~~~~~l-----~~~~~~~l~~~p~~~~~~~~L  436 (472)
T 4g1t_A          364 ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN--QKSREKEKMKDKL-----QKIAKMRLSKNGADSEALHVL  436 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC--CCCHHHHHHHHHH-----HHHHHHHHHHCC-CTTHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHHHHHHHHH-----HHHHHHHHHhCCCCHHHHHHH
Confidence            5444322  1222221 234678889999998886 432  3322211111111     111222233456789999999


Q ss_pred             HHHHHHcCcccccc
Q 040580          395 IAVYLKKQLRRNQI  408 (412)
Q Consensus       395 ~~~~~~~g~~~~a~  408 (412)
                      +.+|...|++++|.
T Consensus       437 G~~~~~~g~~~~A~  450 (472)
T 4g1t_A          437 AFLQELNEKMQQAD  450 (472)
T ss_dssp             HHHHHHHHHCC---
T ss_pred             HHHHHHcCCHHHHH
Confidence            99999999999993

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.69  E-value=9.4e-14  Score=132.13  Aligned_cols=357  Identities=6%  Similarity=-0.066  Sum_probs=251.4

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...|..++.. .+.|++++|..+|+++.+. .+-+...|...+..+.+.|++++|..+|++.++..  |+...|..++.
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~   87 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLS   87 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHH
Confidence            77789999984 7789999999999999986 34577889999999999999999999999999864  68888888876


Q ss_pred             HH-HccCCHHHHHH----HHHHHhhc-CCC-CCHHhHHHHHHHHHh---------cCChHHHHHHHHHHHHCCCCCChHH
Q 040580          123 AY-GRIGCFNEIIS----IIDQVSCR-NAD-LLPEVYSRAISCFGK---------QGQLELMENTLKEMVSRGFSVDSAT  186 (412)
Q Consensus       123 ~~-~~~~~~~~a~~----~~~~m~~~-~~~-~~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~~g~~p~~~~  186 (412)
                      .. ...|+.+.|.+    +|++.... |.. .++..|...+....+         .|+++.|..+|++..+....+....
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~  167 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQL  167 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHH
Confidence            44 34577766655    77766543 333 345588877776654         7899999999999988311111233


Q ss_pred             HHHHHHHH-------------HhcCCHHHHHHHHHHHH------hCC---CCCC--------HHHHHHHHHHHHhc----
Q 040580          187 GNAFIIYY-------------SRFGSLTEMETAYGRLK------RSR---HLID--------KEGIRAVSFTYLKE----  232 (412)
Q Consensus       187 ~~~li~~~-------------~~~g~~~~a~~~~~~~~------~~~---~~~~--------~~~~~~li~~~~~~----  232 (412)
                      |.......             .+.+++..|..++..+.      +..   ++|+        ...|...+......    
T Consensus       168 ~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~  247 (530)
T 2ooe_A          168 WRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRT  247 (530)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccC
Confidence            43322211             12456777777776632      221   2444        24555555433221    


Q ss_pred             ccH----HHHHHHHHHHhcCCCCcchHHHHHHHHHHhc-------CCChH-------HHHHHHHHHHHcCCCCc-HhHHH
Q 040580          233 RKF----FMLGEFLRDVGLGRKDLGNLLWNLLLLSYAG-------NFKMK-------SLQREFMRMSEAGFHPD-LTTFN  293 (412)
Q Consensus       233 ~~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~a~~~~~~m~~~~~~p~-~~~~~  293 (412)
                      ++.    +++...+++.-...+. +...|..+...+.+       .|+++       +|..+|++..+. +.|+ ...|.
T Consensus       248 ~~~~~~~~~a~~~y~~al~~~p~-~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~  325 (530)
T 2ooe_A          248 EDQTLITKRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYF  325 (530)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHH
T ss_pred             CcchhHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHH
Confidence            222    3666677765443332 34888888888775       79987       899999998852 2454 77888


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHH--HHHHHHh
Q 040580          294 IRAVAFSRMSMFWDLHLSLEHMKHESVGPD--LVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDP--YVFEAFG  369 (412)
Q Consensus       294 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~--~li~~~~  369 (412)
                      .++..+.+.|++++|..+|+++.+.  .|+  ...|..+...+.+.|+.++|.++|++.......+...+.  ..+....
T Consensus       326 ~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~  403 (530)
T 2ooe_A          326 AYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYC  403 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            8999999999999999999999884  554  257888888888999999999999998322222222221  1222224


Q ss_pred             cCCcccHHHHHHHhc---cCchHHHHHHHHHHHHcCccccc
Q 040580          370 KGDFHSSSEAFLEFK---RQRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       370 ~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      .|+.++|..+|++..   |.++..|..++..+.+.|+.++|
T Consensus       404 ~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~A  444 (530)
T 2ooe_A          404 SKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNT  444 (530)
T ss_dssp             TCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHH
T ss_pred             cCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhH
Confidence            599999999998643   46789999999999999998877

>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=99.69  E-value=7.8e-14  Score=139.30  Aligned_cols=345  Identities=13%  Similarity=0.040  Sum_probs=225.4

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhcc------ChhhHHHHHHHHh---------------------------cCCCh
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQE------GFVDCASLVEDLG---------------------------RKKKP   60 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~li~~~~---------------------------~~~~~   60 (412)
                      ......+.+|...|.+.+|.++++++.-.      +....+.++.+..                           ..|.+
T Consensus       986 eeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA~Iai~lgly 1065 (1630)
T 1xi4_A          986 EEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIANIAISNELF 1065 (1630)
T ss_pred             HHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhccHHHHHHHHHhCCCH
Confidence            34455667888999999999999987632      2234455554443                           34444


Q ss_pred             hHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580           61 HLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus        61 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      ++|..+|++..     -.....+.++.   ..+++++|.++.++.      -+..+|..+..++.+.|++++|.+.|.+.
T Consensus      1066 EEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA 1131 (1630)
T 1xi4_A         1066 EEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA 1131 (1630)
T ss_pred             HHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence            55555554431     11111222221   344555555555433      23566777777777777777777777553


Q ss_pred             hhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 040580          141 SCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKE  220 (412)
Q Consensus       141 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  220 (412)
                            -++..|..++.++.+.|++++|.+.+...++..  ++....+.++.+|++.++++....+.    +   .++..
T Consensus      1132 ------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~a 1196 (1630)
T 1xi4_A         1132 ------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNA 1196 (1630)
T ss_pred             ------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHH
Confidence                  345667777777777777777777777665543  23323334777777777776533332    1   34555


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH
Q 040580          221 GIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFS  300 (412)
Q Consensus       221 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  300 (412)
                      .+..+...|...|++++|..+|...         ..|..+...|.+.|++++|.+.+++..      +..+|..+-.+|.
T Consensus      1197 d~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1197 HIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHHHHHHh
Confidence            6666777777777888887777763         577777788888888888877777652      4567777777777


Q ss_pred             ccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc---CCcccH
Q 040580          301 RMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK---GDFHSS  376 (412)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~---~~~~~a  376 (412)
                      ..|++..|......     +..++..+..++..|.+.|.+++|..+++.- ... +-....|+-+...|++   ++..++
T Consensus      1262 e~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEh 1335 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREH 1335 (1630)
T ss_pred             hhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHH
Confidence            77777777654432     4446677789999999999999999999776 333 2333445555555655   777788


Q ss_pred             HHHHHHhcc--------CchHHHHHHHHHHHHcCcccccc
Q 040580          377 SEAFLEFKR--------QRKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       377 ~~~~~~~~~--------~~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                      .+.|..-..        .+...|.-+.--|.+-|++++|.
T Consensus      1336 lk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1336 LELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            888876544        46777999999999999999884

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=1e-13  Score=129.86  Aligned_cols=356  Identities=9%  Similarity=-0.102  Sum_probs=236.0

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhc------------cChhhHHHHHHHHhcCCChhHHHHHHHHHHhc-----C-C
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQ------------EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSE-----G-L   75 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~   75 (412)
                      ..++.+...+...|++++|++.|++..+            ....+|+.+...|...|++++|...+++..+.     + .
T Consensus        52 ~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~  131 (472)
T 4g1t_A           52 TMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPY  131 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSS
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccccc
Confidence            4467778888899999999999987532            14567999999999999999999999887642     1 1


Q ss_pred             C-CCHHhHHHHHHHHHh--cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH---HHccCCHHHHHHHHHHHhhcCCCCCH
Q 040580           76 L-PDNSTLCALMLCYAN--NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA---YGRIGCFNEIISIIDQVSCRNADLLP  149 (412)
Q Consensus        76 ~-p~~~~~~~ll~~~~~--~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~~~~~~  149 (412)
                      . ....++..+..++..  .+++++|...|++..+.. |-+...+..+..+   +...++.++|++.+++..+.+ +.++
T Consensus       132 ~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~  209 (472)
T 4g1t_A          132 RIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQ  209 (472)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCH
T ss_pred             chhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccch
Confidence            1 235667666655555  457999999999999865 4456666665555   345677888999999887765 4556


Q ss_pred             HhHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 040580          150 EVYSRAISCFGK----QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAV  225 (412)
Q Consensus       150 ~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  225 (412)
                      .++..+...+..    .|++++|...+++...... .+...+..+...+.+.|++++|...++...+.. +-+..++..+
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  287 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQI  287 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHH
Confidence            677666655544    4678899999998877532 256778889999999999999999999998764 2356667666


Q ss_pred             HHHHHhc-------------------ccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC
Q 040580          226 SFTYLKE-------------------RKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFH  286 (412)
Q Consensus       226 i~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  286 (412)
                      ...|...                   +.+++|...+++.....+. +..++..+...|...|++++|...|++..+....
T Consensus       288 g~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~  366 (472)
T 4g1t_A          288 GCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKELT  366 (472)
T ss_dssp             HHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCC
Confidence            6655432                   3356677777765433332 2367888999999999999999999999876433


Q ss_pred             CcHh--HHHHHHH-HHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHH
Q 040580          287 PDLT--TFNIRAV-AFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPY  363 (412)
Q Consensus       287 p~~~--~~~~ll~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~  363 (412)
                      |...  .+..+.. .....|+.++|...|.+..+  +.|+.......         ...+.++++..-...+.+..++..
T Consensus       367 ~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~~~  435 (472)
T 4g1t_A          367 PVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--INQKSREKEKM---------KDKLQKIAKMRLSKNGADSEALHV  435 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--SCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTTHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHHHHHH
Confidence            3221  2222222 23577899999999998876  44543322222         223344444441112234566776


Q ss_pred             HHHHHhc-CCcccHHHHHHHhcc
Q 040580          364 VFEAFGK-GDFHSSSEAFLEFKR  385 (412)
Q Consensus       364 li~~~~~-~~~~~a~~~~~~~~~  385 (412)
                      +-..|.. |++++|.+.+.+..+
T Consensus       436 LG~~~~~~g~~~~A~~~y~kALe  458 (472)
T 4g1t_A          436 LAFLQELNEKMQQADEDSERGLE  458 (472)
T ss_dssp             HHHHHHHHHHCC-----------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            6667766 999999999887544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=2e-14  Score=119.92  Aligned_cols=196  Identities=13%  Similarity=-0.031  Sum_probs=90.9

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      ++...+..+...+.+.|++++|...|+..++.. +.+...+..+..++.+.|++++|...|++..+.+ +-++..+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            344445555555555555555555555555543 3445555555555555555555555555555443 33344555555


Q ss_pred             HHHHhc-----------CChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 040580          157 SCFGKQ-----------GQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRA  224 (412)
Q Consensus       157 ~~~~~~-----------g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  224 (412)
                      ..+...           |++++|+..|++..+.  .| +...+..+..++...|++++|...|++..+..  .++..+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            555555           5555555555555543  22 23444455555555555555555555555444  34444444


Q ss_pred             HHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHH
Q 040580          225 VSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       225 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                      +..+|...|++++|...+++.....++ +...+..+...+...|++++|+..|++
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC-------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            444444444444444444443222221 224445555555555555555555444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=5.9e-14  Score=119.93  Aligned_cols=221  Identities=9%  Similarity=-0.070  Sum_probs=126.5

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CcC----HHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSF--VLS----VQVLS  118 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~  118 (412)
                      ..|..+...+...|++++|+..|++..+..  .+...+..+...+...|++++|...++...+...  .|+    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            456666677777777777777777777665  5667777777777777777777777777765321  111    46677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhc
Q 040580          119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRF  197 (412)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~  197 (412)
                      .+...+.+.|++++|.+.|++.....  |+.       ..+.+.|++++|...+++....  .| +...+..+...+...
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHh
Confidence            77777777777777777777776543  332       2344556667777777766664  22 334555666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHH
Q 040580          198 GSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREF  277 (412)
Q Consensus       198 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  277 (412)
                      |++++|...++...+.. +.+..++..+...|...|++++|.+.+++.....++ +..+|..+...|...|++++|...|
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            66666666666665543 123444444444444444444444444433222111 1233444444444444444444444


Q ss_pred             HHH
Q 040580          278 MRM  280 (412)
Q Consensus       278 ~~m  280 (412)
                      ++.
T Consensus       231 ~~a  233 (258)
T 3uq3_A          231 DAA  233 (258)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=4.6e-14  Score=120.62  Aligned_cols=225  Identities=9%  Similarity=0.002  Sum_probs=168.9

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC--CC----HHhH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD--LL----PEVY  152 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~----~~~~  152 (412)
                      ...+..+...+...|++++|...|+...+..  .+..++..+..++...|++++|.+.+++..+....  ++    +.+|
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567778888888999999999999988876  77888888999999999999999999887654311  11    4678


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE  232 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  232 (412)
                      ..+...+...|++++|...|++..+.  .|+.       ..+.+.|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            88888888999999999999888874  3442       34556677888888888887653 22455677777778888


Q ss_pred             ccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHH
Q 040580          233 RKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSL  312 (412)
Q Consensus       233 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  312 (412)
                      |++++|.+.+++.....+. +..+|..+...|...|++++|...|++..+.. +.+..++..+...+.+.|++++|...+
T Consensus       153 ~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            8888888888775443333 34777778888888888888888888877653 334667777777888888888888887


Q ss_pred             HHHHh
Q 040580          313 EHMKH  317 (412)
Q Consensus       313 ~~m~~  317 (412)
                      ++..+
T Consensus       231 ~~a~~  235 (258)
T 3uq3_A          231 DAART  235 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.65  E-value=4.4e-14  Score=117.79  Aligned_cols=198  Identities=16%  Similarity=0.062  Sum_probs=157.9

Q ss_pred             cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 040580           42 EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM  121 (412)
Q Consensus        42 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  121 (412)
                      ++...+..+...+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            355677888888999999999999999998764 3467888889999999999999999999998875 56778899999


Q ss_pred             HHHHcc-----------CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHH
Q 040580          122 DAYGRI-----------GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAF  190 (412)
Q Consensus       122 ~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  190 (412)
                      .++.+.           |++++|...|++..+.+ +-++..+..+-..+...|++++|+..|++..+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            999999           99999999999998765 4567788899999999999999999999998876  577888889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          191 IIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       191 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      ..++...|++++|...|+...+.. +.+...+..+...+...|++++|.+.+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999999999999988764 346788888999999999999999888864

>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=2.5e-13  Score=115.82  Aligned_cols=164  Identities=8%  Similarity=-0.042  Sum_probs=71.1

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAY  124 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  124 (412)
                      ..|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            344444445555555555555555544432 2234444444444455555555555555444432 22344444444444


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 040580          125 GRIGCFNEIISIIDQVSCRNADL-LPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEM  203 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  203 (412)
                      ...|++++|.+.|+++...+..| ++..+..+...+...|++++|...|++..+... .+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHHH
Confidence            44444444444444444311111 222444444444444444444444444443211 1233333344444444444444


Q ss_pred             HHHHHHHH
Q 040580          204 ETAYGRLK  211 (412)
Q Consensus       204 ~~~~~~~~  211 (412)
                      ...++.+.
T Consensus       195 ~~~~~~~~  202 (252)
T 2ho1_A          195 RQYYDLFA  202 (252)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.64  E-value=2.5e-14  Score=123.69  Aligned_cols=183  Identities=7%  Similarity=-0.167  Sum_probs=88.5

Q ss_pred             cccCCCChHHHHHHHHHhhcc-------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           22 HQTHPKNGDLARKIIRYRKQE-------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF   94 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~   94 (412)
                      .+...|++++|...++.+.+.       +..+|..+...+...|++++|...|++..+.. +.+..++..+...+...|+
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~   92 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGN   92 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTC
T ss_pred             ccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccC
Confidence            444555666666666555431       33445555555555566666666665555542 2245555555555555555


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKE  174 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  174 (412)
                      +++|...|+...+.. +.+..++..+..++.+.|++++|.+.|+++.+..  |+.......+..+...|++++|...+++
T Consensus        93 ~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~  169 (275)
T 1xnf_A           93 FDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            555555555555543 3344555555555555555555555555554432  1211222222233344555555555544


Q ss_pred             HHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          175 MVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       175 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                      ..... .++...+ .++..+...++.++|...++..
T Consensus       170 ~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~  203 (275)
T 1xnf_A          170 HFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKAD  203 (275)
T ss_dssp             HHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHH
Confidence            44331 1122222 2333444444444444444444

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.63  E-value=3.9e-13  Score=112.23  Aligned_cols=198  Identities=8%  Similarity=-0.101  Sum_probs=80.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|.+.+++..+.. +.++.++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~   87 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLC   87 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            33444444444444444444444444332 2234444444444444444444444444444332 223334444444444


Q ss_pred             hc-CChHHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHH
Q 040580          161 KQ-GQLELMENTLKEMVSRGFSVD-SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       161 ~~-g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  238 (412)
                      .. |++++|...++++.+.+..|+ ...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  166 (225)
T 2vq2_A           88 GRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDA  166 (225)
T ss_dssp             TTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHH
Confidence            44 444444444444444211221 2334444444444444444444444444322 11233333333333333333333


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHH
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMS  281 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  281 (412)
                      .+.+++.....+..+...+..+...+...|+.+.|...++.+.
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  209 (225)
T 2vq2_A          167 DYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQ  209 (225)
T ss_dssp             HHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3333332211110112334444444444555555555555444

>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=99.63  E-value=1.7e-12  Score=129.85  Aligned_cols=336  Identities=11%  Similarity=0.068  Sum_probs=247.7

Q ss_pred             ccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           19 VPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEA   98 (412)
Q Consensus        19 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a   98 (412)
                      +...+...|.+++|..+|++.. ......+.++.   ..+++++|.++.++..      ++.+|..+..++...|++++|
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-~~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEA 1124 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-VNTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEA 1124 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-CHHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHH
Confidence            4566778999999999999875 22222333333   6678999999988552      588899999999999999999


Q ss_pred             HHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580           99 QVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus        99 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      ...|...      -|...|..++.++.+.|++++|.+.+...++..  +++...+.++.+|++.+++++...+.    + 
T Consensus      1125 IdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~- 1191 (1630)
T 1xi4_A         1125 IDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N- 1191 (1630)
T ss_pred             HHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h-
Confidence            9999553      467788889999999999999999999876644  44444556999999999988644442    2 


Q ss_pred             CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHH
Q 040580          179 GFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWN  258 (412)
Q Consensus       179 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  258 (412)
                        .|+...|..+...|...|++++|..+|...         ..|..+...|.+.|++++|.+.+++..      +..+|.
T Consensus      1192 --~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWk 1254 (1630)
T 1xi4_A         1192 --GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWK 1254 (1630)
T ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHH
Confidence              346667778999999999999999999885         489999999999999999999998752      348999


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhc
Q 040580          259 LLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP-DLVTYGCVVDAYLDK  337 (412)
Q Consensus       259 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~  337 (412)
                      .+-.+|...|++..|......+     ..+...+..++..|.+.|.+++|+.+++....  +.| ....|+-+...|++.
T Consensus      1255 ev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~--LeraH~gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1255 EVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSKF 1327 (1630)
T ss_pred             HHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cChhHhHHHHHHHHHHHhC
Confidence            9999999999999998765542     33556677899999999999999999976553  333 344665666666653


Q ss_pred             cccchHHHHHHhc-cC-CCCC------CcccHHHHHHHHhc-CCcccHHHHHHH-------------h--ccCchHHHHH
Q 040580          338 RLGRNLDFGLSKM-NL-DDSP------VVSTDPYVFEAFGK-GDFHSSSEAFLE-------------F--KRQRKWTYRK  393 (412)
Q Consensus       338 ~~~~~a~~~~~~m-~~-~~~p------~~~~~~~li~~~~~-~~~~~a~~~~~~-------------~--~~~~~~~~~~  393 (412)
                       .+++..+.++.. +. ...|      +...|.-++-.|.+ |+++.|...+.+             .  ...|+..|.-
T Consensus      1328 -~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyyk 1406 (1630)
T 1xi4_A         1328 -KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYR 1406 (1630)
T ss_pred             -CHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHH
Confidence             334444444433 21 2222      34457777777777 899888733322             1  1256777777


Q ss_pred             HHHHHHHcC
Q 040580          394 LIAVYLKKQ  402 (412)
Q Consensus       394 l~~~~~~~g  402 (412)
                      .++-|...+
T Consensus      1407 ai~Fyl~~~ 1415 (1630)
T 1xi4_A         1407 AIQFYLEFK 1415 (1630)
T ss_pred             HHHHHHhhC
Confidence            777776555

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.62  E-value=3.2e-14  Score=123.01  Aligned_cols=248  Identities=12%  Similarity=-0.004  Sum_probs=196.1

Q ss_pred             hcCCChhHHHHHHHHHHhcCCC---CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH
Q 040580           55 GRKKKPHLAHQLVNTVKSEGLL---PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN  131 (412)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~g~~---p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  131 (412)
                      ...|++++|++.|+++.+....   .+..++..+...+...|++++|...|+.+.+.+ +.+..+|..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            4568899999999999886421   246778889999999999999999999999875 567899999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          132 EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       132 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      +|.+.|++..+.. +.++.++..+...+...|++++|...|+++.+.  .|+.......+..+...|++++|...++...
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999998765 456779999999999999999999999999885  4555555556666677899999999998877


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc---chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc
Q 040580          212 RSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL---GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD  288 (412)
Q Consensus       212 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  288 (412)
                      ... +++...+ .++..+...++.++|.+.+.+.....+..   +..++..+...|...|++++|...|++..+.  .|+
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~  247 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVH  247 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCT
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cch
Confidence            654 2333333 47777888888899999998864433321   1478899999999999999999999999865  454


Q ss_pred             HhHHHHHHHHHHccCChhHHHHHH
Q 040580          289 LTTFNIRAVAFSRMSMFWDLHLSL  312 (412)
Q Consensus       289 ~~~~~~ll~~~~~~g~~~~a~~~~  312 (412)
                      .  +.....++...|++++|.+-+
T Consensus       248 ~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 N--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             T--CHHHHHHHHHHHHHHHC----
T ss_pred             h--HHHHHHHHHHHHHHHhhHHHH
Confidence            3  223355677788888887765

>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=1.1e-12  Score=111.92  Aligned_cols=210  Identities=10%  Similarity=-0.027  Sum_probs=179.0

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      ...+..+...+...|++++|...|+.+.+.. +.+..++..+...+.+.|++++|.+.|+++.+.. +.++..+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            5667888889999999999999999998875 5678899999999999999999999999998765 4567799999999


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFM  237 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  237 (412)
                      +...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++...+.. +.+...+..+...|...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998844455 45677888899999999999999999988765 3468889999999999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHH
Q 040580          238 LGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNI  294 (412)
Q Consensus       238 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  294 (412)
                      |.+.+++.....+. +...+..+...+...|+.++|...++++.+.  .|+...+..
T Consensus       194 A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~  247 (252)
T 2ho1_A          194 ARQYYDLFAQGGGQ-NARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQE  247 (252)
T ss_dssp             HHHHHHHHHTTSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHH
T ss_pred             HHHHHHHHHHhCcC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHH
Confidence            99999987554443 4578888999999999999999999999876  465544433

>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=4.4e-12  Score=109.57  Aligned_cols=223  Identities=9%  Similarity=-0.054  Sum_probs=125.5

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCcCHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN----NGFVLEAQVVWEELLSSSFVLSVQVLS  118 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  118 (412)
                      +..++..+...+...|++++|++.|++..+.   -+..++..+...+..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            3445555556666666666666666666652   244555556666666    666666666666666654   455566


Q ss_pred             HHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCChHHHHHH
Q 040580          119 DLMDAYGR----IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK----QGQLELMENTLKEMVSRGFSVDSATGNAF  190 (412)
Q Consensus       119 ~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  190 (412)
                      .+...|..    .+++++|.+.|++..+.+   ++..+..+-..|..    .+++++|+..|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            66666666    666666666666665543   44556666666665    666666666666665543   33444445


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhc
Q 040580          191 IIYYSR----FGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAG  266 (412)
Q Consensus       191 i~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  266 (412)
                      ...+..    .+++++|...|+...+.+   +.                                   ..+..+...|..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~-----------------------------------~a~~~lg~~~~~  194 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DS-----------------------------------PGCFNAGNMYHH  194 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH-----------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH-----------------------------------HHHHHHHHHHHc
Confidence            555555    566666666666555443   23                                   344444444444


Q ss_pred             ----CCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHc----cCChhHHHHHHHHHHhC
Q 040580          267 ----NFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR----MSMFWDLHLSLEHMKHE  318 (412)
Q Consensus       267 ----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~  318 (412)
                          .+++++|+..|++..+.+   +...+..+...|.+    .+++++|...|++..+.
T Consensus       195 g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          195 GEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             TCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHc
Confidence                555555555555555432   13344444555555    55555555555555443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=1.1e-12  Score=109.58  Aligned_cols=203  Identities=11%  Similarity=-0.045  Sum_probs=166.2

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            45677888888999999999999999988763 3467888889999999999999999999988865 557888999999


Q ss_pred             HHHcc-CCHHHHHHHHHHHhhcCCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH
Q 040580          123 AYGRI-GCFNEIISIIDQVSCRNADLL-PEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSL  200 (412)
Q Consensus       123 ~~~~~-~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  200 (412)
                      .+... |++++|.+.++++.+.+..|+ +..+..+...+...|++++|+..++++.+... .+...+..+...+.+.|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcCCH
Confidence            99999 999999999999887222222 45888888999999999999999999887532 2467788888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC
Q 040580          201 TEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG  248 (412)
Q Consensus       201 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  248 (412)
                      ++|...++...+.....+...+..+...+...|+.+++..+++.+...
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            999999999887653256777888888888899999999988887533

>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=99.59  E-value=6.5e-12  Score=108.52  Aligned_cols=223  Identities=8%  Similarity=-0.084  Sum_probs=145.9

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCHHhHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNADLLPEVYS  153 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  153 (412)
                      ++.++..+...+...|++++|...|+...+.   .+...+..+...|..    .+++++|.+.|++..+.+   ++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            3445555555566666666666666666552   234455555555555    666666666666555443   344555


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 040580          154 RAISCFGK----QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSR----FGSLTEMETAYGRLKRSRHLIDKEGIRAV  225 (412)
Q Consensus       154 ~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  225 (412)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|+...+.+           
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-----------  144 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN-----------  144 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT-----------
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC-----------
Confidence            55555555    555666665555555543   34444445555555    555555555555544432           


Q ss_pred             HHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHc
Q 040580          226 SFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAG----NFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR  301 (412)
Q Consensus       226 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  301 (412)
                                                 +..++..+...|..    .+++++|+..|++..+.+   +...+..+...|..
T Consensus       145 ---------------------------~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  194 (273)
T 1ouv_A          145 ---------------------------DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHH  194 (273)
T ss_dssp             ---------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             ---------------------------cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHc
Confidence                                       23566666667766    889999999999988764   45677788888988


Q ss_pred             ----cCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----ccccchHHHHHHhc-cCC
Q 040580          302 ----MSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD----KRLGRNLDFGLSKM-NLD  353 (412)
Q Consensus       302 ----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m-~~~  353 (412)
                          .+++++|...+++..+.+.   ...+..+-..|..    .++.++|.+.+++. ..+
T Consensus       195 g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          195 GEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence                9999999999999988653   5677778888888    89999999999887 544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=2e-13  Score=115.57  Aligned_cols=166  Identities=10%  Similarity=0.018  Sum_probs=81.8

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      ....|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            33445555555566666666666666665532 2345555556666666666666666666665543 334555666666


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTE  202 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  202 (412)
                      .+...|++++|.+.++++.+.. +.++..+..+...+...|++++|...+++..+... .+...+..+...+.+.|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHHH
Confidence            6666666666666666655443 33445555555666666666666666665554321 134445555555555555555


Q ss_pred             HHHHHHHHHh
Q 040580          203 METAYGRLKR  212 (412)
Q Consensus       203 a~~~~~~~~~  212 (412)
                      |...++...+
T Consensus       178 A~~~~~~~~~  187 (243)
T 2q7f_A          178 ALSQFAAVTE  187 (243)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.58  E-value=1.8e-12  Score=111.84  Aligned_cols=232  Identities=9%  Similarity=-0.037  Sum_probs=125.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCc--CHHHHHHHHHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVL--SVQVLSDLMDAY  124 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~  124 (412)
                      +......+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.+-.|  ...+|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            3444556666677777777777666542 2234466666666667777777777777666632111  123466666667


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHH
Q 040580          125 GRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEM  203 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a  203 (412)
                      ...|++++|.+.|++..+.. +.++.+|..+...+...|++++|+..|++..+.  .| +...+..+...+...+++++|
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777666544 334456666666667777777777766666554  23 334444444233334466666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhccc---HHHHHHHHHHHhcCC---CCc----chHHHHHHHHHHhcCCChHHH
Q 040580          204 ETAYGRLKRSRHLIDKEGIRAVSFTYLKERK---FFMLGEFLRDVGLGR---KDL----GNLLWNLLLLSYAGNFKMKSL  273 (412)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~---~~~----~~~~~~~li~~~~~~g~~~~a  273 (412)
                      ...|+...+.. +.+...+..+...+...|+   +++|...+++.....   +++    -..+|..+...|...|++++|
T Consensus       162 ~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            66666666543 1224444444444444444   444444443321100   100    013445555555555555555


Q ss_pred             HHHHHHHHHc
Q 040580          274 QREFMRMSEA  283 (412)
Q Consensus       274 ~~~~~~m~~~  283 (412)
                      ...|++..+.
T Consensus       241 ~~~~~~al~~  250 (272)
T 3u4t_A          241 DAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            5555555543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.58  E-value=2.9e-13  Score=114.58  Aligned_cols=201  Identities=7%  Similarity=-0.054  Sum_probs=121.8

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      ....+|..+...+...|++++|...|+.+.+.. +.+..++..+...+.+.|++++|.+.|++..+.. +.++.++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            345667777778888888888888888888754 5567888888888888888888888888887664 44566888888


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHH
Q 040580          157 SCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFF  236 (412)
Q Consensus       157 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  236 (412)
                      ..+...|++++|...+++..+... .+...+..+...+.+.|++++|...++.+.+.. +.+...+..+...+.+.|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            888888888888888888877532 255667777777888888888888888776643 224555555555555555555


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          237 MLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       237 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      +|.+.+++.....+. +..++..+...|...|++++|...+++..+
T Consensus       177 ~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          177 EALSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            555555554322221 234555555555555555555555555544

>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=5.6e-13  Score=120.39  Aligned_cols=277  Identities=7%  Similarity=-0.046  Sum_probs=211.0

Q ss_pred             hhccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           13 KFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        13 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      ++.|..++..+...|....+.   -.....+...|+.+...+...|++++|++.|++..+.. +-+...|+.+..++...
T Consensus        69 ~~~w~di~~~~~~~~~~~~~a---i~~~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~  144 (382)
T 2h6f_A           69 RAEWADIDPVPQNDGPNPVVQ---IIYSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSL  144 (382)
T ss_dssp             CGGGTTSCCCCCCCCSSCSSE---ECCCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             CcccccCCCCCCCCCcCcchh---hhCChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHc
Confidence            345666666666655421000   00011255678888888899999999999999998864 33578889999999999


Q ss_pred             CC-hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 040580           93 GF-VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENT  171 (412)
Q Consensus        93 ~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  171 (412)
                      |+ +++|+..|++.++.. +-+...|+.+..++.+.|++++|+..|+++.+.+ +-++..|..+..++.+.|++++|+..
T Consensus       145 g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~  222 (382)
T 2h6f_A          145 QKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQY  222 (382)
T ss_dssp             TCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHH
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHH
Confidence            96 999999999999876 5678899999999999999999999999998876 56777999999999999999999999


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHHHh-cCCHHHH-----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcc--cHHHHHHHHH
Q 040580          172 LKEMVSRGFSVDSATGNAFIIYYSR-FGSLTEM-----ETAYGRLKRSRHLIDKEGIRAVSFTYLKER--KFFMLGEFLR  243 (412)
Q Consensus       172 ~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~  243 (412)
                      |+++.+.... +...|+.+..++.+ .|..++|     ...++...+.. +-+...|+.+...+...|  ++++|.+.+.
T Consensus       223 ~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~  300 (382)
T 2h6f_A          223 VDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLL  300 (382)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHH
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHH
Confidence            9999886433 67788888888888 6665777     47788877654 236778888888888887  6899999998


Q ss_pred             HHhcCCCCcchHHHHHHHHHHhcCC---------ChHHHHHHHHHH-HHcCCCCcH-hHHHHHHHHHHc
Q 040580          244 DVGLGRKDLGNLLWNLLLLSYAGNF---------KMKSLQREFMRM-SEAGFHPDL-TTFNIRAVAFSR  301 (412)
Q Consensus       244 ~~~~~~~~~~~~~~~~li~~~~~~g---------~~~~a~~~~~~m-~~~~~~p~~-~~~~~ll~~~~~  301 (412)
                      ++ ...++ +...+..+...|.+.|         ..++|+.+|+++ .+.  .|.. .-|..+...+..
T Consensus       301 ~~-~~~p~-~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          301 DL-QPSHS-SPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEK--DTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HH-TTTCC-CHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHHH
T ss_pred             Hh-ccCCC-CHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHH
Confidence            88 22222 4578888888888864         358999999998 543  5553 445555555543

>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=1.6e-12  Score=117.41  Aligned_cols=249  Identities=7%  Similarity=-0.055  Sum_probs=198.8

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC-HHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC-FNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      ...|..+...+.+.|++++|+..++..++.. +-+..+|+.+..++.+.|+ +++|++.|++..+.+ +-++..|+.+..
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 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4567778888889999999999999999875 5678899999999999996 999999999998876 556779999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cccHH
Q 040580          158 CFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLK-ERKFF  236 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~  236 (412)
                      .+...|++++|+..|++..+.... +...|..+..++.+.|++++|...++.+.+... -+...|+.+..++.+ .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999999886432 678888999999999999999999999998763 378889999999998 56657


Q ss_pred             HH-----HHHHHHHhcCCCCcchHHHHHHHHHHhcCC--ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccC------
Q 040580          237 ML-----GEFLRDVGLGRKDLGNLLWNLLLLSYAGNF--KMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMS------  303 (412)
Q Consensus       237 ~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g------  303 (412)
                      +|     .+.+++.-...++ +..+|+.+...+...|  ++++|+..+.++ +. -..+...+..+...|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccc
Confidence            77     4666664333333 3488999999999988  689999999887 32 2344677888888888864      


Q ss_pred             ---ChhHHHHHHHHH-HhCCCCC-CHhhHHHHHHHHHh
Q 040580          304 ---MFWDLHLSLEHM-KHESVGP-DLVTYGCVVDAYLD  336 (412)
Q Consensus       304 ---~~~~a~~~~~~m-~~~g~~p-~~~~~~~li~~~~~  336 (412)
                         ..++|.++++++ .+  +.| ....|..+...+..
T Consensus       330 ~~~~~~~A~~~~~~l~~~--~DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          330 KEDILNKALELCEILAKE--KDTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHT--TCGGGHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHH
Confidence               258899999998 54  345 34566666666654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.56  E-value=1.2e-12  Score=112.95  Aligned_cols=232  Identities=10%  Similarity=-0.017  Sum_probs=137.6

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH----hHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE----VYSRA  155 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~l  155 (412)
                      ..+......+...|++++|...|+...+.. +.+..++..+..++...|++++|.+.+++..+..  .++.    +|..+
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~l   80 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFEYY   80 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHHHH
Confidence            344455666777777777777777777654 3345567777777777777777777777776622  2332    36777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccH
Q 040580          156 ISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKF  235 (412)
Q Consensus       156 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  235 (412)
                      ...+...|++++|+..|++..+.... +...+..+...+...|++++|...++...+.. +.+...+..+...+...+++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777664221 44566677777777777777777777766552 23445555555223333466


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCC---hHHHHHHHHHHHHcC-CCCc------HhHHHHHHHHHHccCCh
Q 040580          236 FMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFK---MKSLQREFMRMSEAG-FHPD------LTTFNIRAVAFSRMSMF  305 (412)
Q Consensus       236 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~-~~p~------~~~~~~ll~~~~~~g~~  305 (412)
                      ++|.+.+++.....++ +...+..+...+...|+   .++|...+++..+.. -.|+      ..+|..+...|...|++
T Consensus       159 ~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            6666666654333322 13455555555555555   555655555554321 1122      13445555556666666


Q ss_pred             hHHHHHHHHHHh
Q 040580          306 WDLHLSLEHMKH  317 (412)
Q Consensus       306 ~~a~~~~~~m~~  317 (412)
                      ++|...+++..+
T Consensus       238 ~~A~~~~~~al~  249 (272)
T 3u4t_A          238 VKADAAWKNILA  249 (272)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            666666666554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.51  E-value=2.1e-12  Score=118.57  Aligned_cols=272  Identities=11%  Similarity=-0.038  Sum_probs=188.9

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHHHhC----C-CCcCHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDN----STLCALMLCYANNGFVLEAQVVWEELLSS----S-FVLSVQ  115 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~  115 (412)
                      ..+..+...+...|++++|+..|++..+.+. .+.    ..+..+...+...|++++|...+++..+.    + .+....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            3455667788899999999999999988642 233    46888888999999999999999988753    1 133457


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcC-----CCCCHHhHHHHHHHHHhcCC-----------------hHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRN-----ADLLPEVYSRAISCFGKQGQ-----------------LELMENTLK  173 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~g~-----------------~~~a~~~~~  173 (412)
                      ++..+...|...|++++|.+.+++..+..     ......++..+...+...|+                 +++|+..++
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            88899999999999999999998875431     11123378888889999999                 999998888


Q ss_pred             HHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcccHHHHHHHHH
Q 040580          174 EMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHL-ID----KEGIRAVSFTYLKERKFFMLGEFLR  243 (412)
Q Consensus       174 ~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~  243 (412)
                      +..+.    +-.| ...++..+...+...|++++|...+++..+.... ++    ..++..+...|...|++++|.+.++
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            76442    1112 2346777888888999999999998887653210 11    2356667777777788777777776


Q ss_pred             HHhcCC---CC--cchHHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCC-cHhHHHHHHHHHHccCChhHHHHHHH
Q 040580          244 DVGLGR---KD--LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA----GFHP-DLTTFNIRAVAFSRMSMFWDLHLSLE  313 (412)
Q Consensus       244 ~~~~~~---~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~  313 (412)
                      +.....   .+  ....++..+...|...|++++|...+++..+.    +..+ ...++..+...|...|++++|...++
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            532111   11  11356667777777777777777777766532    1111 12356666777777777777777777


Q ss_pred             HHHh
Q 040580          314 HMKH  317 (412)
Q Consensus       314 ~m~~  317 (412)
                      +..+
T Consensus       368 ~al~  371 (411)
T 4a1s_A          368 QHLQ  371 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.51  E-value=2.8e-11  Score=106.57  Aligned_cols=217  Identities=9%  Similarity=-0.076  Sum_probs=121.3

Q ss_pred             hHHHHHHHHHHhcCCCCCHHhHHHHHHHHH-------hcCCh-------HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           61 HLAHQLVNTVKSEGLLPDNSTLCALMLCYA-------NNGFV-------LEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        61 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      ++|..+|++..... +-+...|..+...+.       +.|++       ++|..+|++.++.-.+-+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56777777777642 345666776666654       34665       7777777777763113455677777777777


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHH-HhcCCHHHHH
Q 040580          127 IGCFNEIISIIDQVSCRNADLLPE-VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYY-SRFGSLTEME  204 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~g~~~~a~  204 (412)
                      .|++++|.++|++..+.. +-++. +|..+...+.+.|++++|..+|++..+... ++...|....... ...|+.++|.
T Consensus       112 ~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHH
Confidence            788888888887776532 22344 677777777777777777777777776532 2333333222221 1257777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCC-CCc--chHHHHHHHHHHhcCCChHHHHHHHHHHH
Q 040580          205 TAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGR-KDL--GNLLWNLLLLSYAGNFKMKSLQREFMRMS  281 (412)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~  281 (412)
                      .+|+...+.. +-+...|..++..+.+.|++++|..+|++..... .+|  ....|..++..+.+.|+.+.|..+++++.
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7776665532 1234444444444444444444444444432210 011  12344444444444444444444444444

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=1.1e-12  Score=119.85  Aligned_cols=298  Identities=12%  Similarity=-0.004  Sum_probs=205.6

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCc-C
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD----NSTLCALMLCYANNGFVLEAQVVWEELLSS----SFVL-S  113 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~  113 (412)
                      ....+......+...|++++|...|++..+.+ +.+    ...+..+...+...|++++|...++...+.    +-.| .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            34455666777888889999999998888763 223    356777888888889999998888876542    2222 3


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-CC----HHhHHHHHHHHHhcCC--------------------hHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD-LL----PEVYSRAISCFGKQGQ--------------------LELM  168 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~g~--------------------~~~a  168 (412)
                      ..++..+...+...|++++|...+++..+.... .+    ..++..+...+...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            567888888888899999998888876543110 11    2377778888888888                    8888


Q ss_pred             HHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcccHHHH
Q 040580          169 ENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH-LID----KEGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       169 ~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~~~~a  238 (412)
                      ...+++..+.    +-.| ...++..+...+...|++++|...+++..+... .++    ..++..+...|...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            8888776432    2122 234677777888888999999888888764311 112    23677778888888999888


Q ss_pred             HHHHHHHhcC---CCC--cchHHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCCc-HhHHHHHHHHHHccCChhHH
Q 040580          239 GEFLRDVGLG---RKD--LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA----GFHPD-LTTFNIRAVAFSRMSMFWDL  308 (412)
Q Consensus       239 ~~~~~~~~~~---~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a  308 (412)
                      .+.+++....   ..+  ....++..+...|...|++++|...+++..+.    +-.+. ..++..+...+...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8888764211   111  11367788889999999999999999887642    11111 45677788889999999999


Q ss_pred             HHHHHHHHh----CCCCC-CHhhHHHHHHHHHhccccc
Q 040580          309 HLSLEHMKH----ESVGP-DLVTYGCVVDAYLDKRLGR  341 (412)
Q Consensus       309 ~~~~~~m~~----~g~~p-~~~~~~~li~~~~~~~~~~  341 (412)
                      ...+++..+    .+..+ ...++..+...+...|+..
T Consensus       327 ~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          327 MHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            999888654    23222 2455666666777766664

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.49  E-value=2.1e-12  Score=118.49  Aligned_cols=270  Identities=10%  Similarity=-0.068  Sum_probs=197.4

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHccCCHHHHHHHHHHHhhcC--C---CCCHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSV----QVLSDLMDAYGRIGCFNEIISIIDQVSCRN--A---DLLPE  150 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~---~~~~~  150 (412)
                      ..+..+...+...|++++|...|+++.+.+ +.+.    .++..+...|...|++++|.+.+++..+..  .   +....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            345556677889999999999999999864 3333    578899999999999999999999876531  1   12234


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCC-----------------HHHHHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGS-----------------LTEMETAYG  208 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~-----------------~~~a~~~~~  208 (412)
                      ++..+...|...|++++|...+++..+.    +-.| ...++..+...+...|+                 +++|...++
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            7888899999999999999999987653    1122 24567788888999999                 999998888


Q ss_pred             HHHhC----CCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCC---C--cchHHHHHHHHHHhcCCChHHHHHHHH
Q 040580          209 RLKRS----RHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRK---D--LGNLLWNLLLLSYAGNFKMKSLQREFM  278 (412)
Q Consensus       209 ~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~--~~~~~~~~li~~~~~~g~~~~a~~~~~  278 (412)
                      +..+.    +..+ ...++..+...|...|++++|.+.+++.....+   +  ....++..+...|...|++++|...++
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            76542    2111 234777788888899999999988887422111   1  112477888889999999999999998


Q ss_pred             HHHHcCC-CC----cHhHHHHHHHHHHccCChhHHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhccccchHHHHHH
Q 040580          279 RMSEAGF-HP----DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHE----SVGP-DLVTYGCVVDAYLDKRLGRNLDFGLS  348 (412)
Q Consensus       279 ~m~~~~~-~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~a~~~~~  348 (412)
                      +..+..- ..    ...++..+...+...|++++|...+++..+.    +..+ ...++..+...|.+.|++++|.+.++
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            8764210 01    1456777888888999999999988887642    1111 24467777888888889888888887


Q ss_pred             hc
Q 040580          349 KM  350 (412)
Q Consensus       349 ~m  350 (412)
                      +.
T Consensus       368 ~a  369 (411)
T 4a1s_A          368 QH  369 (411)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.48  E-value=3.5e-12  Score=116.57  Aligned_cols=274  Identities=8%  Similarity=-0.102  Sum_probs=202.3

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCC
Q 040580           76 LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS----VQVLSDLMDAYGRIGCFNEIISIIDQVSCR----NADL  147 (412)
Q Consensus        76 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~  147 (412)
                      .+....+......+...|++++|...|+...+.+ +.+    ..++..+...+...|++++|...+++....    +-.+
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            4456677778888999999999999999999864 333    467889999999999999999999986442    1111


Q ss_pred             -CHHhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCC--------------------HH
Q 040580          148 -LPEVYSRAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGS--------------------LT  201 (412)
Q Consensus       148 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~--------------------~~  201 (412)
                       ...++..+...+...|++++|...+++..+.    +-.+ ...++..+...+...|+                    ++
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             1337888889999999999999999987653    1111 13477788888999999                    99


Q ss_pred             HHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHhcC---CCC--cchHHHHHHHHHHhcCCChH
Q 040580          202 EMETAYGRLKRS----RHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDVGLG---RKD--LGNLLWNLLLLSYAGNFKMK  271 (412)
Q Consensus       202 ~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~--~~~~~~~~li~~~~~~g~~~  271 (412)
                      +|...++...+.    +..| ...++..+...|...|++++|.+.+++....   ..+  ....++..+...|...|+++
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            999888876542    2111 2346778888889999999999888874221   111  11247888889999999999


Q ss_pred             HHHHHHHHHHHc----CCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhccccc
Q 040580          272 SLQREFMRMSEA----GFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHE----SVGP-DLVTYGCVVDAYLDKRLGR  341 (412)
Q Consensus       272 ~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~  341 (412)
                      +|...+++..+.    +-.+. ..++..+...+...|++++|...+++..+.    +-.+ ...++..+...|.+.|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            999999887632    11111 456778888899999999999998887642    2112 2556777888888899999


Q ss_pred             hHHHHHHhc
Q 040580          342 NLDFGLSKM  350 (412)
Q Consensus       342 ~a~~~~~~m  350 (412)
                      +|.+.+++.
T Consensus       325 ~A~~~~~~a  333 (406)
T 3sf4_A          325 QAMHFAEKH  333 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998888775

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.48  E-value=2.9e-12  Score=113.71  Aligned_cols=270  Identities=12%  Similarity=-0.024  Sum_probs=170.3

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCC-cCHHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD----NSTLCALMLCYANNGFVLEAQVVWEELLSS----SFV-LSVQVL  117 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~  117 (412)
                      +......+...|++++|...|+++.+... .+    ...+..+...+...|++++|...++...+.    +.. ....++
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            44456667788888888888888877632 23    356777888888888888888888876542    212 235677


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCC-CCC----HHhHHHHHHHHHhcCC--------------------hHHHHHHH
Q 040580          118 SDLMDAYGRIGCFNEIISIIDQVSCRNA-DLL----PEVYSRAISCFGKQGQ--------------------LELMENTL  172 (412)
Q Consensus       118 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~--------------------~~~a~~~~  172 (412)
                      ..+...+...|++++|.+.+++..+... ..+    ..++..+...+...|+                    +++|...+
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            8888888888899888888887654211 011    2267777788888888                    88888888


Q ss_pred             HHHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcccHHHHHHHH
Q 040580          173 KEMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH-LID----KEGIRAVSFTYLKERKFFMLGEFL  242 (412)
Q Consensus       173 ~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~~~~a~~~~  242 (412)
                      ++....    +-.| ....+..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|.+.+
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  246 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  246 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            775432    1111 234566677778888888888888877654210 011    225566666666677777776666


Q ss_pred             HHHhcC---CCC--cchHHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCCc-HhHHHHHHHHHHccCChhHHHHHH
Q 040580          243 RDVGLG---RKD--LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA----GFHPD-LTTFNIRAVAFSRMSMFWDLHLSL  312 (412)
Q Consensus       243 ~~~~~~---~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~  312 (412)
                      ++....   ..+  ....++..+...|...|++++|...+++..+.    +-.+. ..++..+...+.+.|++++|...+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (338)
T 3ro2_A          247 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFA  326 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            653111   000  11345566666677777777777776665432    11111 234555666666677777777766


Q ss_pred             HHHHh
Q 040580          313 EHMKH  317 (412)
Q Consensus       313 ~~m~~  317 (412)
                      ++..+
T Consensus       327 ~~a~~  331 (338)
T 3ro2_A          327 EKHLE  331 (338)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.47  E-value=3.1e-12  Score=113.50  Aligned_cols=270  Identities=9%  Similarity=-0.102  Sum_probs=191.0

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHccCCHHHHHHHHHHHhhc----CCC-CCHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLS----VQVLSDLMDAYGRIGCFNEIISIIDQVSCR----NAD-LLPE  150 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~  150 (412)
                      ..+......+...|++++|...|+++.+.+ +.+    ..++..+...+...|++++|.+.+++....    +-. ....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            344556677889999999999999998864 233    467889999999999999999999886543    111 1234


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----hHHHHHHHHHHHhcCC--------------------HHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGF-SVD----SATGNAFIIYYSRFGS--------------------LTEMET  205 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~--------------------~~~a~~  205 (412)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|..
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            788888999999999999999988754311 112    3467778888888999                    888888


Q ss_pred             HHHHHHhC----CCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-----CCCcchHHHHHHHHHHhcCCChHHHHH
Q 040580          206 AYGRLKRS----RHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDVGLG-----RKDLGNLLWNLLLLSYAGNFKMKSLQR  275 (412)
Q Consensus       206 ~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~a~~  275 (412)
                      .+++..+.    +..+ ...++..+...+...|++++|.+.+++....     .......++..+...+...|++++|..
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88776532    2111 2346777778888888998888888764211     111112477778888888889988888


Q ss_pred             HHHHHHHcCC-CCc----HhHHHHHHHHHHccCChhHHHHHHHHHHhC----CCC-CCHhhHHHHHHHHHhccccchHHH
Q 040580          276 EFMRMSEAGF-HPD----LTTFNIRAVAFSRMSMFWDLHLSLEHMKHE----SVG-PDLVTYGCVVDAYLDKRLGRNLDF  345 (412)
Q Consensus       276 ~~~~m~~~~~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~~~~~~a~~  345 (412)
                      .+++..+..- .++    ..++..+...+...|++++|...+++..+.    +-. ....++..+...|.+.|++++|.+
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            8887663210 111    446667777888888888888888776542    111 124466677778888888888888


Q ss_pred             HHHhc
Q 040580          346 GLSKM  350 (412)
Q Consensus       346 ~~~~m  350 (412)
                      .+++.
T Consensus       325 ~~~~a  329 (338)
T 3ro2_A          325 FAEKH  329 (338)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88776

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.47  E-value=9.2e-12  Score=113.25  Aligned_cols=160  Identities=10%  Similarity=-0.080  Sum_probs=80.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC----CCCc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-C-----CHHhHH
Q 040580           85 LMLCYANNGFVLEAQVVWEELLSS----SFVL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD-L-----LPEVYS  153 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~-----~~~~~~  153 (412)
                      ....+...|++++|...|+...+.    +-++ ...++..+...|...|+++.|.+.+++..+.... +     ...+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            334455566666666666666542    1111 2345666666666666666666666655432100 0     012555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHH
Q 040580          154 RAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRS----RH-LIDKEGIR  223 (412)
Q Consensus       154 ~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~  223 (412)
                      .+...|...|++++|+..|++..+.    +-.+ ...++..+...|...|++++|...+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            5556666666666666666555432    1011 1134555555666666666666666555441    21 22234444


Q ss_pred             HHHHHHHhcccHHHHHHHHHH
Q 040580          224 AVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       224 ~li~~~~~~~~~~~a~~~~~~  244 (412)
                      .+...|.+.|++++|.+.+++
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~  289 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSK  289 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHH
Confidence            555555555555555555444

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.47  E-value=7.7e-12  Score=116.21  Aligned_cols=341  Identities=10%  Similarity=-0.023  Sum_probs=203.5

Q ss_pred             ccccccCCCChHHHHHHHHHhhcc-ChhhHHHHHHHHhcCCCh---hHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC-
Q 040580           19 VPSHQTHPKNGDLARKIIRYRKQE-GFVDCASLVEDLGRKKKP---HLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG-   93 (412)
Q Consensus        19 l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-   93 (412)
                      +...+.+.|++++|...|++..++ +..++..+...+...|+.   ++|...|++..+.    ++..+..|...+...+ 
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCC
Confidence            344556778889999998887654 556666666666667777   8888888887753    5566666666555554 


Q ss_pred             ----ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH---HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChH
Q 040580           94 ----FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN---EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLE  166 (412)
Q Consensus        94 ----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  166 (412)
                          ++++|...|+...+.|. ++  .+..|...|...+..+   .+.+.+......+.   +..+..+...|...+.++
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~-~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGE-GN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTC-SS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGG
T ss_pred             CCCcCHHHHHHHHHHHHHCCC-HH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcc
Confidence                77889999988888763 33  5666777776655433   34455555544442   456777777777777655


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----ccHHHHH
Q 040580          167 LMENTLKEMVSRGFSVDSATGNAFIIYYSRFG---SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE----RKFFMLG  239 (412)
Q Consensus       167 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~a~  239 (412)
                      ++......+.+.-...+...+..+...|.+.|   +.++|...|+...+.| .++...+..+...|...    +++++|.
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            55554443333222223336777777888888   8888888888888877 34555556666666554    6888898


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHH-H--hcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccC-----ChhHHHHH
Q 040580          240 EFLRDVGLGRKDLGNLLWNLLLLS-Y--AGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMS-----MFWDLHLS  311 (412)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g-----~~~~a~~~  311 (412)
                      +.|++..  +.  +...+..+... |  ...+++++|+..|++..+.|   +...+..|-..|. .|     ++++|...
T Consensus       238 ~~~~~aa--~g--~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          238 ALLEKIA--PG--YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHHG--GG--STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHH
T ss_pred             HHHHHHc--CC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHH
Confidence            8888876  22  23677777666 4  45788899999988888766   5556666666666 44     88888888


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHh----ccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-----CCcccHHHHHH
Q 040580          312 LEHMKHESVGPDLVTYGCVVDAYLD----KRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-----GDFHSSSEAFL  381 (412)
Q Consensus       312 ~~~m~~~g~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-----~~~~~a~~~~~  381 (412)
                      |++.. .   -+...+..|-..|..    ..+.++|.+++++. ..+. |+  ....|-..|..     .+..+|...+.
T Consensus       310 ~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~-~~--A~~~Lg~~y~~G~g~~~d~~~A~~~~~  382 (452)
T 3e4b_A          310 FEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ-NS--ADFAIAQLFSQGKGTKPDPLNAYVFSQ  382 (452)
T ss_dssp             HHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC-TT--HHHHHHHHHHSCTTBCCCHHHHHHHHH
T ss_pred             HHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh-HH--HHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence            88765 2   245555566656655    33777888888887 4443 22  22233334432     35666666666


Q ss_pred             Hhcc
Q 040580          382 EFKR  385 (412)
Q Consensus       382 ~~~~  385 (412)
                      .-..
T Consensus       383 ~A~~  386 (452)
T 3e4b_A          383 LAKA  386 (452)
T ss_dssp             HHHT
T ss_pred             HHHH
Confidence            5433

>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=102.66  Aligned_cols=217  Identities=6%  Similarity=-0.054  Sum_probs=157.5

Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc-------cCCH-------HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGR-------IGCF-------NEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-------~~~~-------~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      ++|..+|++.++.. +.+...|..++..+..       .|++       ++|..+|++..+.-.+-++..|..+...+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888888888764 5677888888887763       4775       8899999988763113455688888888999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-hH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcccHHHH
Q 040580          162 QGQLELMENTLKEMVSRGFSVD-SA-TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYL-KERKFFML  238 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~g~~p~-~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~~~a  238 (412)
                      .|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|+...+... ++...|........ ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999998874  454 33 788888888888999999999998887642 34444443333322 25788888


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCc--HhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG-FHPD--LTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      .++|++.-...++ +...|..++..+.+.|++++|..+|++..+.. +.|+  ...|..++....+.|+.+.|..+++++
T Consensus       189 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888775333222 34777888888888888888888888877652 3553  456677777777788888888888777


Q ss_pred             Hh
Q 040580          316 KH  317 (412)
Q Consensus       316 ~~  317 (412)
                      .+
T Consensus       268 ~~  269 (308)
T 2ond_A          268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.47  E-value=3.7e-12  Score=118.32  Aligned_cols=336  Identities=10%  Similarity=0.046  Sum_probs=214.3

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh---HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           50 LVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV---LEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      +...+.+.|++++|.++|++..+.|   +...+..|...+...|+.   ++|...|+...+.    +...+..|...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            4556677899999999999998876   344455566666777887   8999999988854    56667777775555


Q ss_pred             cC-----CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHH---HHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 040580          127 IG-----CFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLEL---MENTLKEMVSRGFSVDSATGNAFIIYYSRFG  198 (412)
Q Consensus       127 ~~-----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  198 (412)
                      .+     +.++|.+.|++..+.+.   +..+..|...|...+..++   +.+.+......|.   ......+...|...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQG  155 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCC
Confidence            55     78899999999987663   2377777777776665443   4445555544443   445556777777777


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcc---cHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC----CChH
Q 040580          199 SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKER---KFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN----FKMK  271 (412)
Q Consensus       199 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~  271 (412)
                      .++++......+.+.-...++..+..+...|...|   +.++|.+.|++....++. +...+..+...|...    ++++
T Consensus       156 ~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~  234 (452)
T 3e4b_A          156 TYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEK  234 (452)
T ss_dssp             CGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             CcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHH
Confidence            55544444333332222233348888888898899   999999999987665554 234446677777654    7999


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHH-H--HccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcc-----ccchH
Q 040580          272 SLQREFMRMSEAGFHPDLTTFNIRAVA-F--SRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKR-----LGRNL  343 (412)
Q Consensus       272 ~a~~~~~~m~~~~~~p~~~~~~~ll~~-~--~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~-----~~~~a  343 (412)
                      +|+..|++.. .|   +...+..+-.. +  ...++.++|...|++..+.|   +...+..|-..|. .|     +.++|
T Consensus       235 ~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A  306 (452)
T 3e4b_A          235 TAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAA  306 (452)
T ss_dssp             HHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHH
T ss_pred             HHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHH
Confidence            9999999987 43   34455555555 3  56899999999999998877   4556666666666 44     88889


Q ss_pred             HHHHHhccCCCCCCcccHHHHHHHHhcC-----CcccHHHHHHHhcc-CchHHHHHHHHHHHH----cCcccccccc
Q 040580          344 DFGLSKMNLDDSPVVSTDPYVFEAFGKG-----DFHSSSEAFLEFKR-QRKWTYRKLIAVYLK----KQLRRNQIFW  410 (412)
Q Consensus       344 ~~~~~~m~~~~~p~~~~~~~li~~~~~~-----~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~w  410 (412)
                      .+.|++.. .  -+......|-..|..|     +..+|.+.+.+-.. .++.....|...|..    .++.++|..|
T Consensus       307 ~~~~~~Aa-~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~  380 (452)
T 3e4b_A          307 EAHFEKAV-G--REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVF  380 (452)
T ss_dssp             HHHHHTTT-T--TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHH
T ss_pred             HHHHHHHh-C--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHH
Confidence            99998876 2  2333333444455443     88889999988655 678888888888886    3467777666

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=1.4e-12  Score=114.62  Aligned_cols=170  Identities=16%  Similarity=0.157  Sum_probs=133.2

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhc-------CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC------C
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSE-------GLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSS------S  109 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~  109 (412)
                      +..++..+...+...|++++|..+|+++.+.       ..+....++..+...+...|++++|...++...+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4456788888999999999999999998763       22334567888889999999999999999988764      2


Q ss_pred             -CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc------CC-CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC---
Q 040580          110 -FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR------NA-DLLPEVYSRAISCFGKQGQLELMENTLKEMVSR---  178 (412)
Q Consensus       110 -~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---  178 (412)
                       .+....++..+...+...|++++|.+.|++..+.      +- +....++..+...+...|++++|+..+++..+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             2334678899999999999999999999988654      11 122337888888999999999999999988664   


Q ss_pred             ---CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          179 ---GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       179 ---g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                         +-.| ...++..+...+...|++++|...+++..+
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               2233 235677888889999999999999988875

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.43  E-value=5e-11  Score=96.25  Aligned_cols=130  Identities=15%  Similarity=0.101  Sum_probs=57.6

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      +..|..+...+.+.|++++|...|++.++.. |-+..++..+..+|.+.|++++|...++...... +-++..+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            3444444444555555555555555444433 3344444444444555555555554444444332 2233344444444


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      +...++++.+...+.+..+... -+...+..+...+.+.|++++|...|++..
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l  134 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTI  134 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHH
Confidence            4444444444444444443211 123333444444444444444444444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.43  E-value=6.1e-11  Score=95.74  Aligned_cols=167  Identities=13%  Similarity=0.021  Sum_probs=139.8

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      ++..|..+...+.+.|++++|++.|++..+.. +-+..++..+..++.+.|++++|...++...... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            45678888999999999999999999988764 3367888889999999999999999999888765 556778888888


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTE  202 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  202 (412)
                      .+...++++.|.+.+++..... +.++..+..+...+.+.|++++|++.|++..+... .+...+..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHH
Confidence            8999999999999999887765 55677888889999999999999999998887532 256778888889999999999


Q ss_pred             HHHHHHHHHhC
Q 040580          203 METAYGRLKRS  213 (412)
Q Consensus       203 a~~~~~~~~~~  213 (412)
                      |...|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999888764

>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=3.6e-12  Score=112.02  Aligned_cols=238  Identities=13%  Similarity=0.071  Sum_probs=152.1

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc------C
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSS-------SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR------N  144 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~  144 (412)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+...|...|++++|.+.+++....      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567888899999999999999999998873       33455678899999999999999999999988654      1


Q ss_pred             -CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC------CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 040580          145 -ADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR------GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRS---  213 (412)
Q Consensus       145 -~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---  213 (412)
                       .+....++..+...+...|++++|...+++..+.      +-.| ....+..+...+...|++++|...++...+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             1223448888899999999999999999988764      2223 3456777888899999999999999888764   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHhcC----------CCCc----chHHHHHHHHHHhcCCChHHHHH
Q 040580          214 ---RHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDVGLG----------RKDL----GNLLWNLLLLSYAGNFKMKSLQR  275 (412)
Q Consensus       214 ---~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----------~~~~----~~~~~~~li~~~~~~g~~~~a~~  275 (412)
                         +..| ...++..+...|...|++++|.+.+++....          ....    ....+..+...+...+.+.++..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               2122 2346667777777777777777777764221          0000    01111222222333344444444


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHH
Q 040580          276 EFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       276 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                      .++...... +.+..++..+...|.+.|++++|...+++..
T Consensus       266 ~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  305 (311)
T 3nf1_A          266 WYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAM  305 (311)
T ss_dssp             --------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            444444221 1224455566666666666666666666554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=2.8e-11  Score=113.15  Aligned_cols=216  Identities=9%  Similarity=-0.098  Sum_probs=160.6

Q ss_pred             hhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh-HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHH
Q 040580           60 PHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV-LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIID  138 (412)
Q Consensus        60 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  138 (412)
                      ++++++.+++..... +.+...+..+...+...|++ ++|...|++..+.. +.+...|..+..+|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            567777777665542 34677778888888888888 88888888887764 4457788888888888888888888888


Q ss_pred             HHhhcCCCCCHHhHHHHHHHHHhc---------CChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhc--------CCHH
Q 040580          139 QVSCRNADLLPEVYSRAISCFGKQ---------GQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRF--------GSLT  201 (412)
Q Consensus       139 ~m~~~~~~~~~~~~~~li~~~~~~---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------g~~~  201 (412)
                      +..+.+  |++..+..+...+...         |++++|+..|++..+.... +...+..+..++...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHH
Confidence            887643  5567777888888888         8888888888888775322 466777777777777        7888


Q ss_pred             HHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHH
Q 040580          202 EMETAYGRLKRSRHL--IDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMR  279 (412)
Q Consensus       202 ~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  279 (412)
                      +|...|+...+....  .+...+..+..+|...|++++|.+.|++.....++ +..++..+...+...|++++|+..+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            888888888775311  36778888888888888888888888875443333 346788888888888888888876655


Q ss_pred             HH
Q 040580          280 MS  281 (412)
Q Consensus       280 m~  281 (412)
                      +.
T Consensus       318 ~~  319 (474)
T 4abn_A          318 TK  319 (474)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=2.2e-11  Score=113.87  Aligned_cols=212  Identities=10%  Similarity=-0.004  Sum_probs=170.3

Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH-HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF-NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLK  173 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  173 (412)
                      ++++...++...... +.+...+..+...+...|++ ++|.+.|++..+.+ +-++..|..+...|...|++++|+..|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            566667777666543 45788999999999999999 99999999998765 4567799999999999999999999999


Q ss_pred             HHHHCCCCCChHHHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------ccHH
Q 040580          174 EMVSRGFSVDSATGNAFIIYYSRF---------GSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE--------RKFF  236 (412)
Q Consensus       174 ~m~~~g~~p~~~~~~~li~~~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------~~~~  236 (412)
                      +..+.  .|+...+..+...+...         |++++|...+++..+.. +.+...+..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            99886  46778888888889898         99999999999988764 33678888888888888        8899


Q ss_pred             HHHHHHHHHhcCCCC--cchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHH
Q 040580          237 MLGEFLRDVGLGRKD--LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLE  313 (412)
Q Consensus       237 ~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~  313 (412)
                      +|.+.+++.....+.  .+...|..+..+|...|++++|...|++..+.  .|+ ...+..+...+...|++++|.+.+.
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999888886543331  24588888888899999999999999888765  344 5567777788888888887776543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.40  E-value=7.5e-11  Score=107.21  Aligned_cols=294  Identities=9%  Similarity=-0.069  Sum_probs=195.6

Q ss_pred             HhcCCChhHHHHHHHHHHhc--CCCCCH--HhHHHHHHHH--HhcCChHHHH-----------HHHHHHHhCCCCcC---
Q 040580           54 LGRKKKPHLAHQLVNTVKSE--GLLPDN--STLCALMLCY--ANNGFVLEAQ-----------VVWEELLSSSFVLS---  113 (412)
Q Consensus        54 ~~~~~~~~~a~~~~~~m~~~--g~~p~~--~~~~~ll~~~--~~~~~~~~a~-----------~~~~~m~~~~~~~~---  113 (412)
                      +.+.+++++|..++++..+.  .+..|.  ..|-.++..-  ...+..+.+.           +.++.+.....+.+   
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            34578999999999988653  232343  3334443321  1223344444           66666654321111   


Q ss_pred             -HHHHHHHHHHHHccCCHHHHHHHHHHHhhcC--CCC---CHHhHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CC
Q 040580          114 -VQVLSDLMDAYGRIGCFNEIISIIDQVSCRN--ADL---LPEVYSRAISCFGKQGQLELMENTLKEMVSR----GF-SV  182 (412)
Q Consensus       114 -~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p  182 (412)
                       ...+......+...|++++|.+.|++..+.-  .+.   ...++..+...|...|++++|+..+.+..+.    +- .|
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             1122336677888999999999999986531  111   2248888999999999999999999987652    11 11


Q ss_pred             -ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcccHHHHHHHHHHHhc-----CCCC
Q 040580          183 -DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHL-ID----KEGIRAVSFTYLKERKFFMLGEFLRDVGL-----GRKD  251 (412)
Q Consensus       183 -~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~  251 (412)
                       ...++..+...|...|++++|...+++..+.... ++    ..++..+...|...|++++|.+.+++...     ....
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             2356778888999999999999999887653111 11    24677788888889999999988887533     2212


Q ss_pred             cchHHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCCcHhHHHHHHHHHHccCC---hhHHHHHHHHHHhCCCCCC-
Q 040580          252 LGNLLWNLLLLSYAGNFKMKSLQREFMRMSEA----GFHPDLTTFNIRAVAFSRMSM---FWDLHLSLEHMKHESVGPD-  323 (412)
Q Consensus       252 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~ll~~~~~~g~---~~~a~~~~~~m~~~g~~p~-  323 (412)
                      ....++..+...|.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++.   +..|+ 
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~  338 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADL  338 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHH
Confidence            23577888888999999999999988886642    111112335667777788888   66666666653   33333 


Q ss_pred             HhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          324 LVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       324 ~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      ...+..+...|...|++++|.+.+++.
T Consensus       339 ~~~~~~la~~y~~~g~~~~A~~~~~~a  365 (383)
T 3ulq_A          339 EDFAIDVAKYYHERKNFQKASAYFLKV  365 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            446667788888889998888888765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.36  E-value=1.8e-09  Score=97.53  Aligned_cols=269  Identities=9%  Similarity=-0.060  Sum_probs=181.9

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHhcCCCCCHH----hHHHHHHHHHhcCChHHHHHHHHHHHhC----CCC-cCHHHHHH
Q 040580           49 SLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNS----TLCALMLCYANNGFVLEAQVVWEELLSS----SFV-LSVQVLSD  119 (412)
Q Consensus        49 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~  119 (412)
                      .....+...|++++|...+++........+..    +++.+...+...|++++|...+++..+.    |.. ....++..
T Consensus        19 ~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   98 (373)
T 1hz4_A           19 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   98 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            33445567899999999999887653222222    4566667788889999999998887652    211 11244677


Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhc----CCC--C-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCC--C--ChHHHH
Q 040580          120 LMDAYGRIGCFNEIISIIDQVSCR----NAD--L-LPEVYSRAISCFGKQGQLELMENTLKEMVSRGFS--V--DSATGN  188 (412)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p--~~~~~~  188 (412)
                      +...+...|++++|.+.+++....    +..  | ....+..+...+...|++++|...+++.......  +  ...++.
T Consensus        99 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  178 (373)
T 1hz4_A           99 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  178 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHH
Confidence            888888999999999998877543    211  1 1236666778888999999999999887653221  1  234566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-C-HHHHH----HHHHHHHhcccHHHHHHHHHHHhcCCCCc---chHHHHH
Q 040580          189 AFIIYYSRFGSLTEMETAYGRLKRSRHLI-D-KEGIR----AVSFTYLKERKFFMLGEFLRDVGLGRKDL---GNLLWNL  259 (412)
Q Consensus       189 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~-~~~~~----~li~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~  259 (412)
                      .+...+...|++++|...+++.......+ . .....    ..+..+...|++++|...+++.....+..   ....+..
T Consensus       179 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  258 (373)
T 1hz4_A          179 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  258 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHH
Confidence            77788888999999999998876532111 1 11111    23344678899999999988764433221   1235667


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHc----CCCCcH-hHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          260 LLLSYAGNFKMKSLQREFMRMSEA----GFHPDL-TTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       260 li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      +...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...+++...
T Consensus       259 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          259 IARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            778888899999999988887532    222222 2555667778888999999888887654

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.35  E-value=1.3e-10  Score=93.37  Aligned_cols=163  Identities=15%  Similarity=0.120  Sum_probs=100.9

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      .|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34555556666667777777666665442 2355666666666666777777777766666553 445566666666666


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 040580          126 RIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMET  205 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  205 (412)
                      ..|++++|.+.++++.... +.++..+..+...+...|++++|...+++..+... .+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHHH
Confidence            6677777776666665543 34455666666666666666666666666655421 234555666666666666666666


Q ss_pred             HHHHHHh
Q 040580          206 AYGRLKR  212 (412)
Q Consensus       206 ~~~~~~~  212 (412)
                      .++...+
T Consensus       166 ~~~~~~~  172 (186)
T 3as5_A          166 HFKKANE  172 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.32  E-value=4.3e-10  Score=101.95  Aligned_cols=289  Identities=11%  Similarity=-0.028  Sum_probs=170.3

Q ss_pred             cCCCChHHHHHHHHHhhcc--------ChhhHHHHHHHH--hcCCChhHHH---------HHHHHHHhcCCCCCH-H---
Q 040580           24 THPKNGDLARKIIRYRKQE--------GFVDCASLVEDL--GRKKKPHLAH---------QLVNTVKSEGLLPDN-S---   80 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~--------~~~~~~~li~~~--~~~~~~~~a~---------~~~~~m~~~g~~p~~-~---   80 (412)
                      .+.+++++|..+++++.+.        +...|-.++..-  ...+....+.         +.++.+.....+.+. .   
T Consensus        23 i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~  102 (378)
T 3q15_A           23 IRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETPQKKLTGLLKYY  102 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGGGHHHHHHHHHH
T ss_pred             HHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhccCCCCccHHHHH
Confidence            5678899999888876542        222333333321  1112222222         556555432111111 1   


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC--C---CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC---C--C-CH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSS--F---VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA---D--L-LP  149 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~--~-~~  149 (412)
                      .+......+...|++++|...|++..+..  +   +....++..+...|...|+++.|...+++..+...   .  + ..
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            12233445667888888888888887631  1   11346778888888888888888888887654211   1  1 12


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCH
Q 040580          150 EVYSRAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKR-----SRHLIDK  219 (412)
Q Consensus       150 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~  219 (412)
                      .+++.+...|...|++++|++.|++..+.    +-.+ ...++..+...+...|++++|...+++..+     .. +...
T Consensus       183 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~  261 (378)
T 3q15_A          183 QSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLP  261 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHH
Confidence            36777888888888888888888876542    1111 124566777788888888888888887765     32 2225


Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhcCC----CCcchHHHHHHHHHHhcCCC---hHHHHHHHHHHHHcCCCCc-HhH
Q 040580          220 EGIRAVSFTYLKERKFFMLGEFLRDVGLGR----KDLGNLLWNLLLLSYAGNFK---MKSLQREFMRMSEAGFHPD-LTT  291 (412)
Q Consensus       220 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~-~~~  291 (412)
                      .++..+...|.+.|++++|.+.+++.....    .......++.+...|...++   +.+|+..+++   .+..|+ ...
T Consensus       262 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~  338 (378)
T 3q15_A          262 KVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEAC  338 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHH
Confidence            566677777777777777777776642211    11112345555556666666   5555555554   222222 234


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHH
Q 040580          292 FNIRAVAFSRMSMFWDLHLSLEHMK  316 (412)
Q Consensus       292 ~~~ll~~~~~~g~~~~a~~~~~~m~  316 (412)
                      +..+...|...|++++|...|++..
T Consensus       339 ~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          339 ARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            4556666777777777777776654

>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=99.31  E-value=3.7e-10  Score=90.73  Aligned_cols=164  Identities=12%  Similarity=0.085  Sum_probs=99.8

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|.+.++++.+.. +.++..+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555666666777777777776666543 4456666667777777777777777777666543 34455666666666


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLG  239 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  239 (412)
                      ...|++++|.+.+++..+... .+...+..+...+...|++++|...++...+.. +.+.                    
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~--------------------  144 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEG--------------------  144 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH--------------------
T ss_pred             HHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccch--------------------
Confidence            666777777776666655421 244555556666666666666666666655432 1123                    


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          240 EFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                                     .++..+...+...|++++|...+++..+
T Consensus       145 ---------------~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          145 ---------------KVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             ---------------HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                           5555566666666666666666666553

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.29  E-value=1.7e-09  Score=97.75  Aligned_cols=267  Identities=11%  Similarity=-0.051  Sum_probs=186.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcCH----HHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCCH----HhHH
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLSV----QVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-DLLP----EVYS  153 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~----~~~~  153 (412)
                      ......+...|++++|...+++........+.    .+++.+...+...|++++|.+.+++...... ..++    .++.
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            33445567899999999999998875422222    2567778889999999999999998754321 1122    2456


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHC----CCC--CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC----CCHHHH
Q 040580          154 RAISCFGKQGQLELMENTLKEMVSR----GFS--VD-SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHL----IDKEGI  222 (412)
Q Consensus       154 ~li~~~~~~g~~~~a~~~~~~m~~~----g~~--p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~  222 (412)
                      .+...+...|++++|...+++..+.    +..  |. ...+..+...+...|++++|...+++.......    ....++
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            6778889999999999999987652    222  32 345666778889999999999999988754322    124567


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHhcC--CCCcchHHHH-----HHHHHHhcCCChHHHHHHHHHHHHcCCCCc---HhHH
Q 040580          223 RAVSFTYLKERKFFMLGEFLRDVGLG--RKDLGNLLWN-----LLLLSYAGNFKMKSLQREFMRMSEAGFHPD---LTTF  292 (412)
Q Consensus       223 ~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~  292 (412)
                      ..+...+...|++++|...+++....  ..... ..+.     ..+..+...|++++|...+++.......++   ...+
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYH-SDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcc-hhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            77888889999999999999875321  11111 1222     233447789999999999988764321111   2245


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHh----CCCCCCH-hhHHHHHHHHHhccccchHHHHHHhc
Q 040580          293 NIRAVAFSRMSMFWDLHLSLEHMKH----ESVGPDL-VTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       293 ~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      ..+...+...|++++|...+++...    .|..++. ..+..+..++...|+.++|.+.+++.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a  319 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  319 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            6777888899999999999888754    3332233 35666677788889999998888776

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.27  E-value=2e-09  Score=97.61  Aligned_cols=299  Identities=10%  Similarity=-0.077  Sum_probs=177.2

Q ss_pred             HHHHHHH--hcCCChhHHHHHHHHHHhc--CCCCC--HHhHHHHHHHH--HhcCChHHHH---------HHHHHHHhCCC
Q 040580           48 ASLVEDL--GRKKKPHLAHQLVNTVKSE--GLLPD--NSTLCALMLCY--ANNGFVLEAQ---------VVWEELLSSSF  110 (412)
Q Consensus        48 ~~li~~~--~~~~~~~~a~~~~~~m~~~--g~~p~--~~~~~~ll~~~--~~~~~~~~a~---------~~~~~m~~~~~  110 (412)
                      +.+-..|  ...+++++|..++++..+.  .+..|  ...|-.|+..-  ...+....+.         ..++.+.....
T Consensus        14 ~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~~   93 (378)
T 3q15_A           14 VKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETPQK   93 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGGGH
T ss_pred             HHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhccCC
Confidence            3344444  6788899999999887652  22223  33334444321  1112222222         56666544221


Q ss_pred             CcCH----HHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHHC---
Q 040580          111 VLSV----QVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-DLL----PEVYSRAISCFGKQGQLELMENTLKEMVSR---  178 (412)
Q Consensus       111 ~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---  178 (412)
                      +.+.    ..+......+...|++++|...|++..+... .++    ..++..+...|...|+++.|+..+++..+.   
T Consensus        94 ~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~  173 (378)
T 3q15_A           94 KLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQN  173 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT
T ss_pred             CCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHh
Confidence            1111    1233445566788999999999988765311 122    237778888888999999999888876542   


Q ss_pred             -CC-CC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcccHHHHHHHHHHHhc---
Q 040580          179 -GF-SV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRS----RHLI-DKEGIRAVSFTYLKERKFFMLGEFLRDVGL---  247 (412)
Q Consensus       179 -g~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---  247 (412)
                       +- .+ ...++..+...|...|++++|...+++..+.    +..+ ...++..+...|...|++++|.+.+++...   
T Consensus       174 ~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~  253 (378)
T 3q15_A          174 HPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSR  253 (378)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             CCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence             11 11 2356777888888899999999888877653    1111 124566677777777888887777776433   


Q ss_pred             --CCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCC---CCc-HhHHHHHHHHHHccCC---hhHHHHHHHHHHhC
Q 040580          248 --GRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGF---HPD-LTTFNIRAVAFSRMSM---FWDLHLSLEHMKHE  318 (412)
Q Consensus       248 --~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---~p~-~~~~~~ll~~~~~~g~---~~~a~~~~~~m~~~  318 (412)
                        ..+.. ..++..+...|.+.|++++|...+++..+..-   .|. ...+..+-..+...++   +.+|..++++   .
T Consensus       254 ~~~~~~~-~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~  329 (378)
T 3q15_A          254 EKVPDLL-PKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---K  329 (378)
T ss_dssp             HHCGGGH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---T
T ss_pred             hhCChhH-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---C
Confidence              22222 46677777777777777777777777664311   111 2344445555556666   5555555554   2


Q ss_pred             CCCCC-HhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          319 SVGPD-LVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       319 g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      +..|+ ...+..+...|...|++++|.+.+++.
T Consensus       330 ~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~a  362 (378)
T 3q15_A          330 NLHAYIEACARSAAAVFESSCHFEQAAAFYRKV  362 (378)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            22222 334555666677777777777776654

>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=99.25  E-value=4.6e-10  Score=109.37  Aligned_cols=165  Identities=10%  Similarity=-0.005  Sum_probs=132.7

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +..+|+.+...+.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++++|+..|++.++.. +-+...|+.+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45678888888888888888888888888753 2257788888888888888888888888888765 456788888888


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLT  201 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~  201 (412)
                      ++.+.|++++|.+.|++..+.+ +-++..|+.+...+.+.|++++|++.|++..+.  .| +...+..+..++...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHH
Confidence            8888889988888888887765 455678888888888888999998888888775  34 4567888888888888888


Q ss_pred             HHHHHHHHHHh
Q 040580          202 EMETAYGRLKR  212 (412)
Q Consensus       202 ~a~~~~~~~~~  212 (412)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888777654

>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=99.22  E-value=3.4e-09  Score=88.57  Aligned_cols=196  Identities=12%  Similarity=0.011  Sum_probs=145.7

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      |+..+......+...|++++|++.|++..+...+++...+..+..++...|++++|...|+...+.. +.+..+|..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            5567777888888999999999999999887544788888778889999999999999999998865 446788999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCH-------HhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---hHHHHHHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLP-------EVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD---SATGNAFII  192 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~  192 (412)
                      ++.+.|++++|.+.|++..+.. +.++       ..|..+-..+...|++++|+..|++..+.  .|+   ...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            9999999999999999988765 4455       45777778888899999999999998875  455   345666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCC
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRK  250 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  250 (412)
                      ++...|     ..+++.+...+ ..+...|....  ....+.+++|...+++.....+
T Consensus       162 ~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCC
Confidence            665443     34445555443 22344444333  2345678889988887644433

>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=99.21  E-value=3.8e-10  Score=97.37  Aligned_cols=202  Identities=16%  Similarity=0.092  Sum_probs=90.4

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhC------C-CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC-------C
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSS------S-FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN-------A  145 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------~  145 (412)
                      .++..+...+...|++++|...++...+.      + .+....++..+...|...|++++|.+.|++.....       .
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  123 (283)
T 3edt_B           44 TMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH  123 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC
Confidence            34444555555555555555555554432      1 11223445555555555555555555555443320       0


Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC------CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----
Q 040580          146 DLLPEVYSRAISCFGKQGQLELMENTLKEMVSR------GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRS-----  213 (412)
Q Consensus       146 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----  213 (412)
                      +....++..+...+...|++++|...+++..+.      +-.| ...++..+...+...|++++|...+++..+.     
T Consensus       124 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~  203 (283)
T 3edt_B          124 PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKE  203 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            111224455555555555555555555554432      1112 1234445555555555555555555554432     


Q ss_pred             --CCCCC-HHHHHHHHHHHHhc------ccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          214 --RHLID-KEGIRAVSFTYLKE------RKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       214 --~~~~~-~~~~~~li~~~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                        ...+. ...+..+...+...      ..+.++...++...... .....++..+...|...|++++|...|++..+
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          204 FGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDS-PTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             SSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCC-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              01111 11111111111111      11222322332222111 11346777888888888888888888887664

>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=99.21  E-value=1.1e-09  Score=106.88  Aligned_cols=163  Identities=10%  Similarity=0.046  Sum_probs=142.1

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      +..+|+.|...+.+.|++++|+..|++.++.. +-+..+|+.|..+|.+.|++++|++.|++..+.+ +-++.+|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            36789999999999999999999999999875 5568899999999999999999999999998765 456779999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHH
Q 040580          158 CFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFF  236 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  236 (412)
                      .+.+.|++++|++.|++..+.  .| +...+..+..++.+.|++++|...|++..+.. +-+...+..+...|...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHH
Confidence            999999999999999998875  34 56788999999999999999999999988764 235788899999999999998


Q ss_pred             HHHHHHHHH
Q 040580          237 MLGEFLRDV  245 (412)
Q Consensus       237 ~a~~~~~~~  245 (412)
                      +|.+.+++.
T Consensus       163 ~A~~~~~ka  171 (723)
T 4gyw_A          163 DYDERMKKL  171 (723)
T ss_dssp             THHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888877764

>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=99.21  E-value=4.9e-10  Score=96.66  Aligned_cols=222  Identities=16%  Similarity=0.054  Sum_probs=153.7

Q ss_pred             cCCCChHHHHHHHHHhhc-------c----ChhhHHHHHHHHhcCCChhHHHHHHHHHHhc------CCCC-CHHhHHHH
Q 040580           24 THPKNGDLARKIIRYRKQ-------E----GFVDCASLVEDLGRKKKPHLAHQLVNTVKSE------GLLP-DNSTLCAL   85 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~~~~~l   85 (412)
                      ...|++++|...+++..+       +    ...++..+...+...|++++|...|++..+.      +-.| ...++..+
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            345666666666665432       2    3567889999999999999999999998764      2222 35678889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC------C-CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc------C-CCCCHHh
Q 040580           86 MLCYANNGFVLEAQVVWEELLSS------S-FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR------N-ADLLPEV  151 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~  151 (412)
                      ...+...|++++|...+++..+.      . .+....++..+...+...|++++|.+.|++..+.      + .+....+
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            99999999999999999998764      1 1345678999999999999999999999988764      1 1122347


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHC-------CCCCChH-HHHHHHHHHHhcCCHH------HHHHHHHHHHhCCCCC
Q 040580          152 YSRAISCFGKQGQLELMENTLKEMVSR-------GFSVDSA-TGNAFIIYYSRFGSLT------EMETAYGRLKRSRHLI  217 (412)
Q Consensus       152 ~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~-~~~~li~~~~~~g~~~------~a~~~~~~~~~~~~~~  217 (412)
                      +..+...+...|++++|...+++..+.       ...+... .+..+.......+...      .+...++.... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888999999999999999999988753       1233332 3333333333322222      22222211111 1112


Q ss_pred             CHHHHHHHHHHHHhcccHHHHHHHHHHHh
Q 040580          218 DKEGIRAVSFTYLKERKFFMLGEFLRDVG  246 (412)
Q Consensus       218 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~  246 (412)
                      ...++..+...|...|++++|.+.+++..
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al  279 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCAS  279 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35578888999999999999999998753

>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=99.19  E-value=7.5e-09  Score=86.48  Aligned_cols=205  Identities=11%  Similarity=-0.008  Sum_probs=154.3

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      .|+..+......+...|++++|...|+...+...+++...+..+..++.+.|++++|.+.|++..+.+ +-++.+|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            46788888999999999999999999999987633788888889999999999999999999998755 44566899999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCh-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 040580          157 SCFGKQGQLELMENTLKEMVSRGFSVDS-------ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLID---KEGIRAVS  226 (412)
Q Consensus       157 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li  226 (412)
                      ..+...|++++|+..+++..+.... +.       ..|..+...+...|++++|...|+...+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            9999999999999999999885322 33       45777778888999999999999999876  354   56677777


Q ss_pred             HHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 040580          227 FTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIR  295 (412)
Q Consensus       227 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  295 (412)
                      ..|...|+.     .++++...... +...|....  ....+.+++|+..|++..+.  .|+......+
T Consensus       161 ~~~~~~~~~-----~~~~a~~~~~~-~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~~~~  219 (228)
T 4i17_A          161 VLFYNNGAD-----VLRKATPLASS-NKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEIKQM  219 (228)
T ss_dssp             HHHHHHHHH-----HHHHHGGGTTT-CHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHH-----HHHHHHhcccC-CHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            777665543     22332222111 123444333  23346789999999999876  5664443333

>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=99.18  E-value=8.1e-08  Score=92.64  Aligned_cols=391  Identities=9%  Similarity=-0.049  Sum_probs=205.9

Q ss_pred             hccccccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCC---hhHHHHHHHHHHhcC-CCCCHHhHHHHH
Q 040580           14 FKRFNVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKK---PHLAHQLVNTVKSEG-LLPDNSTLCALM   86 (412)
Q Consensus        14 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~g-~~p~~~~~~~ll   86 (412)
                      ..|..++..+.+.+.++.++.+++++...   ....|...+..-.+.+.   ++.+..+|++..... ..|+...|..-+
T Consensus        67 ~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl  146 (679)
T 4e6h_A           67 FLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYI  146 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            44667777777778888888888887653   55567777777777787   888888998887753 147888877766


Q ss_pred             HHHHhcCCh--------HHHHHHHHHHHh-CCC-Cc-CHHHHHHHHHHHHc---------cCCHHHHHHHHHHHhhcCCC
Q 040580           87 LCYANNGFV--------LEAQVVWEELLS-SSF-VL-SVQVLSDLMDAYGR---------IGCFNEIISIIDQVSCRNAD  146 (412)
Q Consensus        87 ~~~~~~~~~--------~~a~~~~~~m~~-~~~-~~-~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~  146 (412)
                      .-..+.++.        +.+.++|+..+. .|. .| +...|...+.....         .++++.+.++|++.......
T Consensus       147 ~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~  226 (679)
T 4e6h_A          147 TYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMD  226 (679)
T ss_dssp             HHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCS
T ss_pred             HHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccH
Confidence            655554443        334577777654 455 44 45678777766542         34567788888887642111


Q ss_pred             CCHHhHH---HHHHHHH----------hcCChHHHHHHHHHHHH--CCCC---CC--------------------hHHHH
Q 040580          147 LLPEVYS---RAISCFG----------KQGQLELMENTLKEMVS--RGFS---VD--------------------SATGN  188 (412)
Q Consensus       147 ~~~~~~~---~li~~~~----------~~g~~~~a~~~~~~m~~--~g~~---p~--------------------~~~~~  188 (412)
                      .-..+|.   .+-....          ...+++.|...+.++..  .++.   |.                    ...|.
T Consensus       227 ~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~  306 (679)
T 4e6h_A          227 CLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWL  306 (679)
T ss_dssp             SHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHH
Confidence            1112332   2221110          01123334444444321  1110   10                    02233


Q ss_pred             HHHHHHHhcC-------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHH-HHHHHHhcCCCCcchHHHHHH
Q 040580          189 AFIIYYSRFG-------SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLG-EFLRDVGLGRKDLGNLLWNLL  260 (412)
Q Consensus       189 ~li~~~~~~g-------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l  260 (412)
                      ..+.---..+       ..+.+..+|++....- +-....|...+..+...|+.++|. +++++.....+. +...|-..
T Consensus       307 ~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~-s~~Lwl~~  384 (679)
T 4e6h_A          307 EWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPN-SAVLAFSL  384 (679)
T ss_dssp             HHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3332211111       1233445666665532 335666666666666666666664 666654322221 23455566


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHcC---------CCCc------------HhHHHHHHHHHHccCChhHHHHHHHHHHhCC
Q 040580          261 LLSYAGNFKMKSLQREFMRMSEAG---------FHPD------------LTTFNIRAVAFSRMSMFWDLHLSLEHMKHES  319 (412)
Q Consensus       261 i~~~~~~g~~~~a~~~~~~m~~~~---------~~p~------------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g  319 (412)
                      +...-+.|++++|..+|+++.+..         -.|+            ...|...+....+.|..+.|..+|.+..+.-
T Consensus       385 a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~  464 (679)
T 4e6h_A          385 SEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLK  464 (679)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTG
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            666666677777777777665421         0131            2245556666666666777777777666541


Q ss_pred             CCCCHhhHHHHHHHHHhc-cccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc--C----chHH
Q 040580          320 VGPDLVTYGCVVDAYLDK-RLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR--Q----RKWT  390 (412)
Q Consensus       320 ~~p~~~~~~~li~~~~~~-~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~--~----~~~~  390 (412)
                      ..+....|......-.+. ++.+.|.++|+.. +. ..-+...+...+..... |+...|..+|++...  +    ....
T Consensus       465 ~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~l  543 (679)
T 4e6h_A          465 KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMI  543 (679)
T ss_dssp             GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHH
T ss_pred             CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHH
Confidence            111222232222222222 3466677776665 22 11122223334444433 666667666666443  2    2345


Q ss_pred             HHHHHHHHHHcCccccc
Q 040580          391 YRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       391 ~~~l~~~~~~~g~~~~a  407 (412)
                      |..+++--.+.|+.+.+
T Consensus       544 w~~~~~fE~~~G~~~~~  560 (679)
T 4e6h_A          544 FQKVIFFESKVGSLNSV  560 (679)
T ss_dssp             HHHHHHHHHHTCCSHHH
T ss_pred             HHHHHHHHHHcCCHHHH
Confidence            66666655566655443

>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=99.17  E-value=2.3e-09  Score=80.98  Aligned_cols=129  Identities=15%  Similarity=0.085  Sum_probs=76.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      +|..+...+...|++++|..+|+++.+.+ +.+...+..+...+...|++++|...++.+.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34555556666666666666666665543 2345555566666666666666666666665543 344555666666666


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          126 RIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ..|++++|.+.++++.... +.++.++..+...+.+.|++++|...++++.+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            6666666666666665443 33444555566666666666666666665554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.17  E-value=4.6e-09  Score=91.49  Aligned_cols=141  Identities=8%  Similarity=-0.121  Sum_probs=82.2

Q ss_pred             ChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCcC-HHHHHHHHHHHHccCCHHHH
Q 040580           59 KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSS----SFVLS-VQVLSDLMDAYGRIGCFNEI  133 (412)
Q Consensus        59 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~~~~~~a  133 (412)
                      ++++|...|++.               ...+...|++++|...|++..+.    |-+++ ..+|+.+..+|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            366677666665               23456677777777777766542    22222 45677777777777777777


Q ss_pred             HHHHHHHhhcCCC-CC----HHhHHHHHHHHHhc-CChHHHHHHHHHHHHCCC----CCC-hHHHHHHHHHHHhcCCHHH
Q 040580          134 ISIIDQVSCRNAD-LL----PEVYSRAISCFGKQ-GQLELMENTLKEMVSRGF----SVD-SATGNAFIIYYSRFGSLTE  202 (412)
Q Consensus       134 ~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~----~p~-~~~~~~li~~~~~~g~~~~  202 (412)
                      ...|++..+.... .+    ..+++.+...|... |++++|+..|++..+...    .+. ..++..+...+.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            7777765432100 01    22566666666664 777777777766544210    000 2345556666666666666


Q ss_pred             HHHHHHHHHhCC
Q 040580          203 METAYGRLKRSR  214 (412)
Q Consensus       203 a~~~~~~~~~~~  214 (412)
                      |...|+...+..
T Consensus       177 A~~~~~~al~~~  188 (292)
T 1qqe_A          177 ASDIYSKLIKSS  188 (292)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHH
Confidence            666666666543

>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=99.14  E-value=3.6e-07  Score=88.19  Aligned_cols=362  Identities=6%  Similarity=-0.064  Sum_probs=238.4

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC---hHHHHHHHHHHHhCC-CCcCHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF---VLEAQVVWEELLSSS-FVLSVQVLS  118 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~-~~~~~~~~~  118 (412)
                      |..+|..++..+.+.+.++.+..+|+.+... .+.+...|..-+..-.+.++   ++.+..+|++.+... .+|++..|.
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~  143 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWL  143 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            8889999999999999999999999999986 46677888888888888888   999999999999864 248999999


Q ss_pred             HHHHHHHccCCH--------HHHHHHHHHHhhc-CC-CC-CHHhHHHHHHHHH---------hcCChHHHHHHHHHHHHC
Q 040580          119 DLMDAYGRIGCF--------NEIISIIDQVSCR-NA-DL-LPEVYSRAISCFG---------KQGQLELMENTLKEMVSR  178 (412)
Q Consensus       119 ~li~~~~~~~~~--------~~a~~~~~~m~~~-~~-~~-~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~  178 (412)
                      ..+....+.++.        +.+.++|+..... |. .+ +...|...+.-..         ..++++.+..+|++....
T Consensus       144 ~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~i  223 (679)
T 4e6h_A          144 SYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQ  223 (679)
T ss_dssp             HHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhC
Confidence            988877766654        3355778776542 43 33 3457877776543         344578889999998863


Q ss_pred             CCCCChHHHH---HHHHHHH----------hcCCHHHHHHHHHHHHhC--CCC---------------C-----C---HH
Q 040580          179 GFSVDSATGN---AFIIYYS----------RFGSLTEMETAYGRLKRS--RHL---------------I-----D---KE  220 (412)
Q Consensus       179 g~~p~~~~~~---~li~~~~----------~~g~~~~a~~~~~~~~~~--~~~---------------~-----~---~~  220 (412)
                      ....-..+|.   .+.....          ...+++.|...+.++...  ++.               |     +   ..
T Consensus       224 P~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~  303 (679)
T 4e6h_A          224 PMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLL  303 (679)
T ss_dssp             CCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHH
Confidence            2111123332   2222210          011234455555543321  111               1     0   13


Q ss_pred             HHHHHHHHHHhcc-------cHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHH-HHHHHHHHcCCCCcHhHH
Q 040580          221 GIRAVSFTYLKER-------KFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQ-REFMRMSEAGFHPDLTTF  292 (412)
Q Consensus       221 ~~~~li~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~~~~p~~~~~  292 (412)
                      .|...+.---..+       ..+.+..++++.-...+. +...|-....-+...|+.++|. .+|++.... ++.+...+
T Consensus       304 lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~-~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lw  381 (679)
T 4e6h_A          304 IWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCF-APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLA  381 (679)
T ss_dssp             HHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHH
T ss_pred             HHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHH
Confidence            4444444333222       133455667765333332 3488888888888889999997 999999864 23445556


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHhCC---------CCCC------------HhhHHHHHHHHHhccccchHHHHHHhc-
Q 040580          293 NIRAVAFSRMSMFWDLHLSLEHMKHES---------VGPD------------LVTYGCVVDAYLDKRLGRNLDFGLSKM-  350 (412)
Q Consensus       293 ~~ll~~~~~~g~~~~a~~~~~~m~~~g---------~~p~------------~~~~~~li~~~~~~~~~~~a~~~~~~m-  350 (412)
                      -..+....+.|++++|..+|+.+.+..         -.|+            ...|...++...+.|..+.|.++|... 
T Consensus       382 l~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~  461 (679)
T 4e6h_A          382 FSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCR  461 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            678888889999999999999987631         0142            346888888888899999999999998 


Q ss_pred             cC-C-CCCCcccHHHHHHHHhcCCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCccccc
Q 040580          351 NL-D-DSPVVSTDPYVFEAFGKGDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       351 ~~-~-~~p~~~~~~~li~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      +. . ..+......+.+.....++.+.|.++|+....   .++..|...++-....|+.+.|
T Consensus       462 ~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~A  523 (679)
T 4e6h_A          462 RLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQV  523 (679)
T ss_dssp             HTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHH
Confidence            33 1 11222222222222223558899999887544   6777888888877778877766

>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=99.13  E-value=6e-09  Score=78.62  Aligned_cols=130  Identities=16%  Similarity=0.109  Sum_probs=96.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .|..+...+...|++++|..+++.+.+.+ +.+..++..+...+...|++++|.+.|+++...+ +.++..+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            45667777778888888888888887754 4567777778888888888888888888877654 445667777777888


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          161 KQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      ..|++++|...++++.+... .+...+..+...+.+.|++++|...++.+.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            88888888888888776532 24566667777777888888888887776653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.05  E-value=6.3e-08  Score=83.29  Aligned_cols=143  Identities=13%  Similarity=-0.013  Sum_probs=79.7

Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           98 AQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-DLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus        98 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      +...+++..+.+ +++..++..+..++...|++++|++++++....+- .-+...+..++..+.+.|+.+.|.+.+++|.
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            455566655544 44455555666667777777777777776644331 1233466666677777777777777777776


Q ss_pred             HCCCCC-----ChHHHHHHHHHHH--hcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Q 040580          177 SRGFSV-----DSATGNAFIIYYS--RFG--SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV  245 (412)
Q Consensus       177 ~~g~~p-----~~~~~~~li~~~~--~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  245 (412)
                      +.  .|     +..+...+..++.  ..|  +...|..+|+++.+..  |+..+...++.++...|++++|++.++.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            53  34     2344444444422  222  6667777777765432  33223333333555566666666665543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.04  E-value=1.5e-08  Score=88.17  Aligned_cols=175  Identities=9%  Similarity=-0.015  Sum_probs=134.9

Q ss_pred             ChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhc----CCCCC-HHhHHHHHHHHHhcCChHHHHHHH
Q 040580           28 NGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSE----GLLPD-NSTLCALMLCYANNGFVLEAQVVW  102 (412)
Q Consensus        28 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~  102 (412)
                      ++++|...+++.           ...+...|++++|.+.|++....    |-+++ ..+|+.+..+|.+.|++++|...|
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            477777777664           55678899999999999887653    32222 568899999999999999999999


Q ss_pred             HHHHhC----CCCc-CHHHHHHHHHHHHcc-CCHHHHHHHHHHHhhcCCCC-C----HHhHHHHHHHHHhcCChHHHHHH
Q 040580          103 EELLSS----SFVL-SVQVLSDLMDAYGRI-GCFNEIISIIDQVSCRNADL-L----PEVYSRAISCFGKQGQLELMENT  171 (412)
Q Consensus       103 ~~m~~~----~~~~-~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~~~  171 (412)
                      +...+.    |-.+ -..+++.+...|... |++++|.+.|++..+..... +    ..+++.+...+.+.|++++|+..
T Consensus       101 ~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  180 (292)
T 1qqe_A          101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            988763    2111 146889999999996 99999999999886532111 1    34788899999999999999999


Q ss_pred             HHHHHHCCCCCCh------HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          172 LKEMVSRGFSVDS------ATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       172 ~~~m~~~g~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      |++..+.......      ..+..+..++...|++++|...|++..+.
T Consensus       181 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  228 (292)
T 1qqe_A          181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (292)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999886433222      14667778888999999999999987753

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.02  E-value=7.1e-09  Score=80.48  Aligned_cols=142  Identities=10%  Similarity=0.001  Sum_probs=91.3

Q ss_pred             ccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           19 VPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        19 l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      |...+...|++++|+..++...+.   +...+-.+...|.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            445566677777777777766543   34455667777777777777777777777653 23566777777777777777


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHH-HHHHhhcCCCCCHHhHHHHHHHHHhcC
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISI-IDQVSCRNADLLPEVYSRAISCFGKQG  163 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~m~~~~~~~~~~~~~~li~~~~~~g  163 (412)
                      ++|...|+...+.. +-+..+|..+...|.+.|+.++|.+. +++..+.. +-++.+|......+...|
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            77777777777654 44566777777777777777665544 46655544 445556666555555554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.02  E-value=4.1e-08  Score=83.86  Aligned_cols=101  Identities=14%  Similarity=-0.005  Sum_probs=65.9

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC---HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CcCHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD---NSTLCALMLCYANNGFVLEAQVVWEELLSSSF--VLSVQVL  117 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~  117 (412)
                      +...+......+.+.|++++|+..|+++.+.. +-+   ...+..+..++.+.|++++|...|+...+...  +.....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            45555566666677777777777777777652 112   45666677777777777777777777776421  1224556


Q ss_pred             HHHHHHHHc--------cCCHHHHHHHHHHHhhcC
Q 040580          118 SDLMDAYGR--------IGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       118 ~~li~~~~~--------~~~~~~a~~~~~~m~~~~  144 (412)
                      ..+..++.+        .|++++|...|++..+..
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            666667766        777777777777776543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.01  E-value=3.3e-08  Score=84.45  Aligned_cols=101  Identities=12%  Similarity=0.066  Sum_probs=80.6

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC---HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC--CCCHHh
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS---VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA--DLLPEV  151 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~  151 (412)
                      .+...+..+...+.+.|++++|...|+.+.+.. +.+   ...+..+..++.+.|++++|...|++..+...  +..+.+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            356677777888889999999999999998864 333   67888899999999999999999999877531  122446


Q ss_pred             HHHHHHHHHh--------cCChHHHHHHHHHHHHC
Q 040580          152 YSRAISCFGK--------QGQLELMENTLKEMVSR  178 (412)
Q Consensus       152 ~~~li~~~~~--------~g~~~~a~~~~~~m~~~  178 (412)
                      +..+..++..        .|++++|+..|++..+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            7777788888        89999999999998875

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.97  E-value=3.9e-08  Score=84.61  Aligned_cols=182  Identities=8%  Similarity=-0.096  Sum_probs=128.9

Q ss_pred             HHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           63 AHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSF-VLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        63 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      |+..|++....+ .++..++..+..++...|++++|++++...+..|. .-+...+..++..+.+.|+.+.|.+.+++|.
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            666777776655 56777777888999999999999999999877663 2467889999999999999999999999997


Q ss_pred             hcCCCC-----CHHhHHHHHHHHH--h--cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          142 CRNADL-----LPEVYSRAISCFG--K--QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       142 ~~~~~~-----~~~~~~~li~~~~--~--~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      +.  .|     +..+...+..++.  .  .+++..|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            64  34     2345555655532  3  34899999999999775  35534444556689999999999999997765


Q ss_pred             CC---------CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC
Q 040580          213 SR---------HLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD  251 (412)
Q Consensus       213 ~~---------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  251 (412)
                      .-         -+-++.+...+|......|+  +|.++++++....++
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~  285 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHE  285 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCC
Confidence            31         02244444344433333444  555555555444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.97  E-value=4.8e-08  Score=80.38  Aligned_cols=161  Identities=11%  Similarity=-0.026  Sum_probs=93.7

Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCCC-HHhHHH----------------HHHHHHhcCChHHHHHHHHHHHhCCCCcCH
Q 040580           52 EDLGRKKKPHLAHQLVNTVKSEGLLPD-NSTLCA----------------LMLCYANNGFVLEAQVVWEELLSSSFVLSV  114 (412)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~----------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  114 (412)
                      ..+...|++++|+..|++..+.  .|+ ...|..                +..++.+.|++++|...|+..++.. +-+.
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~   88 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNV   88 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCH
Confidence            3445566666666666666654  232 333444                6667777777777777777777654 4466


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ--LELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                      ..+..+..++...|++++|.+.|++..+.+ +-++.+|..+...|...|+  ...+...++....  ..|....+.....
T Consensus        89 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~  165 (208)
T 3urz_A           89 DCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGL  165 (208)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHH
Confidence            777777777777777777777777776654 4455667666666654443  2333444443321  1222222223344


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRHLIDKE  220 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~  220 (412)
                      ++...|++++|...|++..+.  .|+..
T Consensus       166 ~~~~~~~~~~A~~~~~~al~l--~P~~~  191 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVILR--FPSTE  191 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTTT--SCCHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh--CCCHH
Confidence            455567777777777776654  35543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.97  E-value=8.2e-08  Score=78.95  Aligned_cols=183  Identities=8%  Similarity=-0.013  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+......+...|++++|...|+...+.. +-+...|...     ..              .......+...+.+...+.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~-----~~--------------~~~~~~~~~~~~~lg~~~~   65 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWT-----NV--------------DKNSEISSKLATELALAYK   65 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHH-----HS--------------CTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHh-----hh--------------cchhhhhHHHHHHHHHHHH
Confidence            33344445566677777777777766643 2223333330     00              0000011112223555555


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc--HHHH
Q 040580          161 KQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK--FFML  238 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~--~~~a  238 (412)
                      +.|++++|+..|++..+.... +...+..+..++...|++++|...|+...+.. +.+...+..+...|...|.  ...+
T Consensus        66 ~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~  143 (208)
T 3urz_A           66 KNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKL  143 (208)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHH
Confidence            666666666666655553211 34455555555666666666666666655543 1234444444444433322  2223


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDL  289 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  289 (412)
                      ...+....  .+.+....+.....++...|++++|...|++..+.  .|+.
T Consensus       144 ~~~~~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~  190 (208)
T 3urz_A          144 ETDYKKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPST  190 (208)
T ss_dssp             HHHHC-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCH
T ss_pred             HHHHHHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCH
Confidence            33333221  11111122333334444455666666666655533  4543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.95  E-value=4.7e-08  Score=84.83  Aligned_cols=177  Identities=11%  Similarity=-0.012  Sum_probs=92.1

Q ss_pred             HHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 040580           30 DLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS  109 (412)
Q Consensus        30 ~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  109 (412)
                      +.....++.....+...+..+...+...|++++|...|++..+.. +-+...+..+...+.+.|++++|...++.+....
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~  181 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD  181 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh
Confidence            334444444443344445555555556666666666666655542 2244555556666666666666666666555432


Q ss_pred             CCcCHHHHHH-HHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHH
Q 040580          110 FVLSVQVLSD-LMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATG  187 (412)
Q Consensus       110 ~~~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~  187 (412)
                        |+...... ....+.+.++.+.|.+.+++..... +.++..+..+...+...|++++|+..|.+..+..... +...+
T Consensus       182 --p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          182 --QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             --CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             --cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence              33322221 2222444455555556665555543 3445556666666666666666666666665542211 13445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                      ..+...+...|+.++|...++..
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHH
Confidence            55555666666665555555443

>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=98.94  E-value=2e-08  Score=98.06  Aligned_cols=170  Identities=8%  Similarity=-0.091  Sum_probs=123.3

Q ss_pred             hcCCChhHHHHHHHHHH--------hcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           55 GRKKKPHLAHQLVNTVK--------SEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        55 ~~~~~~~~a~~~~~~m~--------~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      ...|++++|++.+++..        +.. +.+...+..+..++.+.|++++|...|++..+.+ +.+...|..+..++.+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            66788888888888877        321 3355677777788888888888888888887764 4567788888888888


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHH
Q 040580          127 IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETA  206 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  206 (412)
                      .|++++|.+.|++..+.+ +-++..|..+...+.+.|++++ +..|++..+.... +...+..+..++.+.|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            888888888888887665 4456678888888888888888 8888887765322 456677777888888888888888


Q ss_pred             HHHHHhCCCCCC-HHHHHHHHHHHHh
Q 040580          207 YGRLKRSRHLID-KEGIRAVSFTYLK  231 (412)
Q Consensus       207 ~~~~~~~~~~~~-~~~~~~li~~~~~  231 (412)
                      |++..+..  |+ ...+..+..++..
T Consensus       557 ~~~al~l~--P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          557 LDEVPPTS--RHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHTSCTTS--TTHHHHHHHHHHHTC-
T ss_pred             HHhhcccC--cccHHHHHHHHHHHHc
Confidence            87776543  43 4455555555544

>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=98.92  E-value=3.3e-08  Score=86.75  Aligned_cols=165  Identities=9%  Similarity=-0.027  Sum_probs=95.6

Q ss_pred             CCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           26 PKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEEL  105 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m  105 (412)
                      .|++++|..++++..+....++      +...++++.|...|++.               ...|...|++++|...|.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~------~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSF------MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCS------SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccc------cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHH
Confidence            4566777777776554321110      11146666666666554               34566677777777777766


Q ss_pred             HhC----CCCc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC--C-CCC--HHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          106 LSS----SFVL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN--A-DLL--PEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       106 ~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~-~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      .+.    +-++ -..+|+.+...|.+.|++++|...|++..+..  . .+.  ..+++.+...|.. |++++|+..|++.
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            542    1111 13467777777777777777777777654321  0 111  2356666666666 7777777777765


Q ss_pred             HHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          176 VSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       176 ~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      .+.    |-.+ ...++..+...+.+.|++++|...|++..+
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  183 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKS  183 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            442    1100 124566666677777777777777766654

>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=3.4e-08  Score=96.49  Aligned_cols=174  Identities=9%  Similarity=-0.103  Sum_probs=117.2

Q ss_pred             HhcCChHHHHHHHHHHH--------hCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           90 ANNGFVLEAQVVWEELL--------SSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~--------~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      ...|++++|.+.+++..        +.. +.+...+..+..++.+.|++++|.+.|++..+.+ +-++..|..+...+..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            56778888888888777        332 4456777777888888888888888888777654 4556677777778888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHH
Q 040580          162 QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEF  241 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  241 (412)
                      .|++++|+..|++..+.... +...+..+..++.+.|++++ ...|++..+.. +.+...+..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888888887764321 45666777777778888887 77777777654 23556667777777777777777777


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHHhcCCC
Q 040580          242 LRDVGLGRKDLGNLLWNLLLLSYAGNFK  269 (412)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~li~~~~~~g~  269 (412)
                      +++.....++ +..++..+..++...++
T Consensus       557 ~~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HHhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            7765433332 23556666666655443

>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=98.90  E-value=3.1e-08  Score=79.11  Aligned_cols=155  Identities=14%  Similarity=0.084  Sum_probs=63.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH-HHccCC
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA-YGRIGC  129 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~  129 (412)
                      ...+...|++++|...|++..+.. +-+...+..+...+...|++++|...++...+..  |+...+..+... +...+.
T Consensus        13 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~   89 (176)
T 2r5s_A           13 VSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQAA   89 (176)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhcc
Confidence            334444445555555544443321 1133444444444444555555555444444322  122222111111 111111


Q ss_pred             HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHH
Q 040580          130 FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYG  208 (412)
Q Consensus       130 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~  208 (412)
                      ...|.+.|++..+.+ +-++..+..+...+...|++++|...|++..+....+ +...+..+...+...|+.++|...|+
T Consensus        90 ~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A           90 ESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             SCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             cchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            222344444444332 2234444444445555555555555555544432221 12344444444455555555544444


Q ss_pred             H
Q 040580          209 R  209 (412)
Q Consensus       209 ~  209 (412)
                      .
T Consensus       169 ~  169 (176)
T 2r5s_A          169 R  169 (176)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.89  E-value=2.2e-07  Score=76.64  Aligned_cols=175  Identities=7%  Similarity=-0.089  Sum_probs=120.7

Q ss_pred             HHHHHHHHhhc-cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC----ChHHHHHHHHHH
Q 040580           31 LARKIIRYRKQ-EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG----FVLEAQVVWEEL  105 (412)
Q Consensus        31 ~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~m  105 (412)
                      +|.+.|++..+ .+..++..+-..+...+++++|++.|++..+.|   ++..+..|...|.. +    ++++|...|+..
T Consensus         4 eA~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A   79 (212)
T 3rjv_A            4 EPGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKA   79 (212)
T ss_dssp             CTTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHH
Confidence            45556655444 367777777777777888888888888887765   56667777777766 5    788888888888


Q ss_pred             HhCCCCcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCC-CCHHhHHHHHHHHHh----cCChHHHHHHHHHHH
Q 040580          106 LSSSFVLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNAD-LLPEVYSRAISCFGK----QGQLELMENTLKEMV  176 (412)
Q Consensus       106 ~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~  176 (412)
                      .+.|   +...+..|...|..    .+++++|.+.|++..+.+.. ..+..+..|-..|..    .+++++|+..|++..
T Consensus        80 ~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           80 VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            7654   55667777777776    77888888888887665421 125677777777776    677888888888877


Q ss_pred             HCCCCCChHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHhCC
Q 040580          177 SRGFSVDSATGNAFIIYYSRF-G-----SLTEMETAYGRLKRSR  214 (412)
Q Consensus       177 ~~g~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~  214 (412)
                      +.+  ++...+..|-..|... |     +.++|...|+...+.|
T Consensus       157 ~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          157 SLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            651  2334455555555442 2     7788888887777666

>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=98.87  E-value=2e-08  Score=80.18  Aligned_cols=159  Identities=15%  Similarity=0.070  Sum_probs=124.1

Q ss_pred             cccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHH-HHh
Q 040580           16 RFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLC-YAN   91 (412)
Q Consensus        16 ~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~   91 (412)
                      .......+.+.|++++|...+++..+   .+...+..+...+...|++++|+..|++.....  |+...+..+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            44555667889999999999998764   377889999999999999999999999987653  455444332222 223


Q ss_pred             cCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-CHHhHHHHHHHHHhcCChHHHHH
Q 040580           92 NGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADL-LPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      .+....+...++...+.. +.+...+..+..++...|++++|.+.|+++.+.+..+ ++..+..+...+...|+.++|..
T Consensus        87 ~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           87 QAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            333445788899888864 5568999999999999999999999999998765322 35589999999999999999999


Q ss_pred             HHHHHHH
Q 040580          171 TLKEMVS  177 (412)
Q Consensus       171 ~~~~m~~  177 (412)
                      .|++...
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987654

>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=98.87  E-value=1.8e-08  Score=78.20  Aligned_cols=142  Identities=7%  Similarity=-0.150  Sum_probs=96.6

Q ss_pred             HHHhcCCChhHHHHHHHHHHhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           52 EDLGRKKKPHLAHQLVNTVKSEGLLP-DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ..+...|++++|+..+......  .| +...+..+...|.+.|++++|.+.|+..++.. +-+..+|..+..+|.+.|++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            3445567778888877776543  23 23455667777888888888888888887765 55677888888888888888


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHH-HHHHHHCCCCC-ChHHHHHHHHHHHhcCC
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENT-LKEMVSRGFSV-DSATGNAFIIYYSRFGS  199 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~~g~~p-~~~~~~~li~~~~~~g~  199 (412)
                      ++|...|++..+.+ +-++.+|..+...+.+.|+++++... +++..+.  .| +...|......+...|+
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCc
Confidence            88888888877655 44566788888888888887765554 4666553  34 44556555555555553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.86  E-value=2.8e-07  Score=76.70  Aligned_cols=186  Identities=8%  Similarity=-0.025  Sum_probs=94.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCC-CC-HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-cCH-HHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLL-PD-NSTLCALMLCYANNGFVLEAQVVWEELLSSSFV-LSV-QVLSDLM  121 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~-~~~~~li  121 (412)
                      .+..+...+.+.|++++|+..|+++.+.... |. ...+..+..++.+.|++++|...|+.+.+.... +.. ..+..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHH
Confidence            3444555666677777777777777664211 11 345666667777777777777777777664311 111 2333344


Q ss_pred             HHHHc------------------cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 040580          122 DAYGR------------------IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD  183 (412)
Q Consensus       122 ~~~~~------------------~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  183 (412)
                      .++.+                  .|+.++|...|+++.+.. +-++..+......-          .+...+.       
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~----------~~~~~~~-------  147 (225)
T 2yhc_A           86 LTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLV----------FLKDRLA-------  147 (225)
T ss_dssp             HHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHH----------HHHHHHH-------
T ss_pred             HHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHH----------HHHHHHH-------
Confidence            44332                  455666666666665432 22222222110000          0000000       


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCC
Q 040580          184 SATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLI--DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRK  250 (412)
Q Consensus       184 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  250 (412)
                       ...-.+...+.+.|++++|...|+.+.+.....  ....+..+..+|.+.|+.++|.+.++.+....+
T Consensus       148 -~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          148 -KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             -HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             -HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence             001223445566666666666666666543111  123455666666666666666666666544443

>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=9.7e-08  Score=91.40  Aligned_cols=152  Identities=11%  Similarity=0.023  Sum_probs=110.4

Q ss_pred             CCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 040580           26 PKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVW  102 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  102 (412)
                      .|++++|...+++..+   .+...|..+...+...|++++|.+.|++..+.. +-+...+..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4678888888887654   256778888888888899999999998888753 335778888888888899999999999


Q ss_pred             HHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc---CChHHHHHHHHHHHHCC
Q 040580          103 EELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ---GQLELMENTLKEMVSRG  179 (412)
Q Consensus       103 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~g  179 (412)
                      ++..+.. +.+...+..+..++.+.|++++|.+.|++..+.+ +.++..+..+...+...   |+.++|.+.+++..+.+
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            8888765 5567888888888889999999999998887765 45567888888888888   88889998888887764


Q ss_pred             C
Q 040580          180 F  180 (412)
Q Consensus       180 ~  180 (412)
                      .
T Consensus       159 p  159 (568)
T 2vsy_A          159 V  159 (568)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=98.85  E-value=9.6e-08  Score=91.46  Aligned_cols=154  Identities=9%  Similarity=-0.051  Sum_probs=107.9

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHH
Q 040580           57 KKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISI  136 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  136 (412)
                      .|++++|.+.|++..+.. +-+...+..+...+.+.|++++|...|++..+.. +.+...+..+..+|.+.|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            467788888888877653 2357778888888888888888888888888765 45678888888888888888888888


Q ss_pred             HHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhc---CCHHHHHHHHHHHHhC
Q 040580          137 IDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRF---GSLTEMETAYGRLKRS  213 (412)
Q Consensus       137 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~  213 (412)
                      |++..+.+ +.++..+..+...+.+.|++++|.+.|++..+... .+...+..+...+...   |+.++|...+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            88887765 45567888888888888888888888888877532 2456777788888888   8888888888888776


Q ss_pred             C
Q 040580          214 R  214 (412)
Q Consensus       214 ~  214 (412)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            5

>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=98.84  E-value=2.3e-07  Score=76.34  Aligned_cols=128  Identities=13%  Similarity=-0.034  Sum_probs=100.6

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      .+..+...+...|++++|+..|++..    .|+...+..+...+.+.|++++|...|+...+.. +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            34556667778888888888887663    5678888888888888889999888888888765 556788888888888


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCC----------------HHhHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 040580          126 RIGCFNEIISIIDQVSCRNADLL----------------PEVYSRAISCFGKQGQLELMENTLKEMVSRG  179 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  179 (412)
                      +.|++++|.+.|++..+.. +.+                +..+..+...+.+.|++++|...|++..+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            8899999988888887643 222                2577788888888889999988888888753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.84  E-value=1.2e-07  Score=82.27  Aligned_cols=162  Identities=8%  Similarity=-0.093  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHH-HHHH
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNA-FIIY  193 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-li~~  193 (412)
                      ..+..+...+.+.|++++|.+.|++..+.. +-++..+..+...+.+.|++++|...+++....  .|+...... ....
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~  194 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHH
Confidence            334444444444444444444444444333 233334444444444444444444444444332  122211111 1112


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC-cchHHHHHHHHHHhcCCChHH
Q 040580          194 YSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD-LGNLLWNLLLLSYAGNFKMKS  272 (412)
Q Consensus       194 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~  272 (412)
                      +.+.++.+.|...++...... +.+...+..+...|...|++++|.+.+.+.....++ .+...+..+...|...|+.++
T Consensus       195 l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCc
Confidence            333334444444444444332 123444444444444444444444444443222222 123556666666666666666


Q ss_pred             HHHHHHHH
Q 040580          273 LQREFMRM  280 (412)
Q Consensus       273 a~~~~~~m  280 (412)
                      |...|++-
T Consensus       274 a~~~~r~a  281 (287)
T 3qou_A          274 LASXYRRQ  281 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66555543

>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=98.84  E-value=9.8e-07  Score=72.67  Aligned_cols=141  Identities=8%  Similarity=-0.034  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC----CHHHHHHHH
Q 040580           62 LAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG----CFNEIISII  137 (412)
Q Consensus        62 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----~~~~a~~~~  137 (412)
                      +|++.|++..+.|   ++..+..|...+...+++++|...|+...+.|   +...+..|...|.. +    ++++|.+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3555555555543   55555555555656666666666666665544   34445555555555 4    556666666


Q ss_pred             HHHhhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHh----cCCHHHHHHHHH
Q 040580          138 DQVSCRNADLLPEVYSRAISCFGK----QGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSR----FGSLTEMETAYG  208 (412)
Q Consensus       138 ~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~----~g~~~~a~~~~~  208 (412)
                      ++..+.+   ++..+..|-..|..    .+++++|+..|++..+.|... ....+..|-..|..    .+++++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            6554433   23444445444444    455555555555555443210 13334444444444    344444444444


Q ss_pred             HHHh
Q 040580          209 RLKR  212 (412)
Q Consensus       209 ~~~~  212 (412)
                      ...+
T Consensus       154 ~A~~  157 (212)
T 3rjv_A          154 GSSS  157 (212)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.83  E-value=5.5e-06  Score=71.81  Aligned_cols=133  Identities=8%  Similarity=-0.092  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHHhcCCCC-CHHhHHHHHHHHHhcC--ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH----Hcc---CCH
Q 040580           61 HLAHQLVNTVKSEGLLP-DNSTLCALMLCYANNG--FVLEAQVVWEELLSSSFVLSVQVLSDLMDAY----GRI---GCF  130 (412)
Q Consensus        61 ~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----~~~---~~~  130 (412)
                      ++|+++++.+...  .| +...|+.--..+...+  ++++++.+++.++... +-+..+|+.--..+    ...   +++
T Consensus        50 ~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           50 ERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             HHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            4555555555543  22 2333444444444444  5555555555555443 33334444433333    333   445


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChH--HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLE--LMENTLKEMVSRGFSVDSATGNAFIIYYSRFG  198 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  198 (412)
                      ++++++++++.+.+ +-+..+|+.-.-.+.+.|.++  ++++.++++.+.... |...|+.-.....+.+
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSG
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcc
Confidence            55555555554443 334444444444444444444  555555555444322 3344443333333333

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.82  E-value=7e-07  Score=74.30  Aligned_cols=185  Identities=16%  Similarity=-0.018  Sum_probs=125.7

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-Cc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH---hH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSF-VL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE---VY  152 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~  152 (412)
                      +...+..+...+.+.|++++|...|+.+.+... .| ....+..+..++.+.|++++|...|+++.+.. +-++.   .+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHH
Confidence            445566677778899999999999999987531 12 24678888899999999999999999987754 22222   44


Q ss_pred             HHHHHHHHh------------------cCChHHHHHHHHHHHHCCCCCChH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          153 SRAISCFGK------------------QGQLELMENTLKEMVSRGFSVDSA-TGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       153 ~~li~~~~~------------------~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      ..+..++..                  .|++++|+..|++..+.  .|+.. ........    +      .+...+.  
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l----~------~~~~~~~--  147 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRL----V------FLKDRLA--  147 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHH----H------HHHHHHH--
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHH----H------HHHHHHH--
Confidence            444444443                  46777888888777765  34332 22111110    0      0001110  


Q ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcc--hHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          214 RHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLG--NLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       214 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                            .....+...|.+.|++++|...++++....++..  ..++..+..+|.+.|+.++|...++.+...
T Consensus       148 ------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          148 ------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             ------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             ------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence                  1123456788899999999999999765544421  357888999999999999999999998876

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.81  E-value=9.8e-06  Score=70.24  Aligned_cols=217  Identities=7%  Similarity=-0.006  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC--CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH----Hhc---CChH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG--CFNEIISIIDQVSCRNADLLPEVYSRAISCF----GKQ---GQLE  166 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----~~~---g~~~  166 (412)
                      ++|+.+++.++..+ +-+..+|+.--..+...|  +++++++.++.+...+ +-+..+|+.--..+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            45555555555543 334455555555555555  5666666666555443 23333444322222    222   4555


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc------HHHH
Q 040580          167 LMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLT--EMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK------FFML  238 (412)
Q Consensus       167 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------~~~a  238 (412)
                      +++.+++.+.+...+ +...|+.-...+.+.|+++  ++.+.++.+.+... -|...|+.-...+.+.+.      ++++
T Consensus       128 ~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            666666655554222 4445554444455555555  55555555555432 244444444444444443      5555


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHH-HHHHHHHHHHcC--CCCcHhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          239 GEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKS-LQREFMRMSEAG--FHPDLTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      .+.+++.-...+. |..+|+.+-..+.+.|+..+ +..+..+..+.+  -..+...+..+...+.+.|+.++|.++++.+
T Consensus       206 l~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          206 LNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            5555543222222 33555555555555554333 223333333211  1224455555556666666666666666665


Q ss_pred             Hh
Q 040580          316 KH  317 (412)
Q Consensus       316 ~~  317 (412)
                      .+
T Consensus       285 ~~  286 (306)
T 3dra_A          285 KS  286 (306)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>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=98.80  E-value=2.9e-07  Score=80.65  Aligned_cols=174  Identities=9%  Similarity=-0.066  Sum_probs=131.7

Q ss_pred             CCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhc----CCCC-CHHhHHHHHHHHHhcCChHHHHH
Q 040580           26 PKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSE----GLLP-DNSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      .++++.|...|+..           ...|...|++++|...|.+..+.    |-.+ -..+|+.+...|.+.|++++|..
T Consensus        29 ~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~   97 (307)
T 2ifu_A           29 KPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQ   97 (307)
T ss_dssp             SCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHH
T ss_pred             CCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            58899998887764           56778899999999999887653    2111 14578888999999999999999


Q ss_pred             HHHHHHhC----CCCc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-----CHHhHHHHHHHHHhcCChHHHHH
Q 040580          101 VWEELLSS----SFVL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADL-----LPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus       101 ~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      .|++..+.    |-++ -..+++.+...|.+ |++++|.+.|++..+.....     ...+++.+...+.+.|++++|+.
T Consensus        98 ~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  176 (307)
T 2ifu_A           98 YIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAA  176 (307)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99987653    2111 24678889999988 99999999999876532111     13478889999999999999999


Q ss_pred             HHHHHHHC----CCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          171 TLKEMVSR----GFSVD-SATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       171 ~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      .|++..+.    +..+. ...+..+..++...|++++|...|++..
T Consensus       177 ~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          177 SLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            99988653    22221 2256666677778899999999999887

>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=98.75  E-value=8.1e-06  Score=70.80  Aligned_cols=166  Identities=10%  Similarity=0.040  Sum_probs=92.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH------hHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CC----hHHH
Q 040580          119 DLMDAYGRIGCFNEIISIIDQVSCRNADLLPE------VYSRAISCFGKQGQLELMENTLKEMVSRGFS-VD----SATG  187 (412)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~~~  187 (412)
                      ..+..+...|++++|.+++++..... ..++.      .+..+...+...|++++|+..|++..+.... ++    ..++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKE-EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccc-cCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            34566777777777777777776532 22222      2223455555666777777777777663222 12    2246


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHh
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRLKRSR--HLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYA  265 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  265 (412)
                      +.+...|...|++++|...|++..+.-  .+.+.                               .....++..+...|.
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~-------------------------------~~~~~~~~nlg~~y~  207 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNE-------------------------------EFDVKVRYNHAKALY  207 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCH-------------------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccch-------------------------------hHHHHHHHHHHHHHH
Confidence            667777777777777777777665310  00000                               001235556666666


Q ss_pred             cCCChHHHHHHHHHHHH----cCCCCc-HhHHHHHHHHHHccCC-hhHHHHHHHHHH
Q 040580          266 GNFKMKSLQREFMRMSE----AGFHPD-LTTFNIRAVAFSRMSM-FWDLHLSLEHMK  316 (412)
Q Consensus       266 ~~g~~~~a~~~~~~m~~----~~~~p~-~~~~~~ll~~~~~~g~-~~~a~~~~~~m~  316 (412)
                      +.|++++|+..+++..+    .+..+. ..+|..+..++.+.|+ .++|.+.+++..
T Consensus       208 ~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          208 LDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            66666666666655442    222222 4556666666666663 466666665554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.73  E-value=2.5e-05  Score=72.94  Aligned_cols=344  Identities=8%  Similarity=-0.122  Sum_probs=195.9

Q ss_pred             CChHHHHHHHHHhhc--cChhhHHHHHHHHhcCCC-hhHHHHHHHHHHhc-CCC-CCHHhHHHHHHHHH----hcCChHH
Q 040580           27 KNGDLARKIIRYRKQ--EGFVDCASLVEDLGRKKK-PHLAHQLVNTVKSE-GLL-PDNSTLCALMLCYA----NNGFVLE   97 (412)
Q Consensus        27 ~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~-g~~-p~~~~~~~ll~~~~----~~~~~~~   97 (412)
                      |+++.+..+|++...  |+...|...+....+.+. .+....+|+..... |.. ++...|...+.-+.    ..++++.
T Consensus        28 ~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~  107 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEK  107 (493)
T ss_dssp             TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHH
Confidence            778888899888665  677888888887776653 45667778777653 433 36667777666543    2456788


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHc-------------cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC-
Q 040580           98 AQVVWEELLSSSFVLSVQVLSDLMDAYGR-------------IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG-  163 (412)
Q Consensus        98 a~~~~~~m~~~~~~~~~~~~~~li~~~~~-------------~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-  163 (412)
                      +..+|+..++.....-...|......-..             .+.+..|..+++++...--..+...|...+.--...+ 
T Consensus       108 vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~  187 (493)
T 2uy1_A          108 IRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGM  187 (493)
T ss_dssp             HHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCc
Confidence            88899888874211112233322221111             1122333444444332100112335555544432221 


Q ss_pred             -C-----hHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHH
Q 040580          164 -Q-----LELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFM  237 (412)
Q Consensus       164 -~-----~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  237 (412)
                       -     .+.+..+|+++.... ..+...|-..+.-+.+.|+++.|..+++.....  +.+...+.    .|+...+.++
T Consensus       188 ~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~  260 (493)
T 2uy1_A          188 KLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEA  260 (493)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTH
T ss_pred             cCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhH
Confidence             1     345677888887753 235667777788888899999999999999887  33433332    2322211112


Q ss_pred             HHH-HHHHHhcC--------CCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHc-cCChhH
Q 040580          238 LGE-FLRDVGLG--------RKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSR-MSMFWD  307 (412)
Q Consensus       238 a~~-~~~~~~~~--------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~g~~~~  307 (412)
                      ..+ +.+.....        ........|-..+....+.++.+.|..+|++. +.. .++...|......-.. .++.+.
T Consensus       261 ~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~  338 (493)
T 2uy1_A          261 VYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRAT  338 (493)
T ss_dssp             HHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHH
T ss_pred             HHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHH
Confidence            111 11111000        00111255777777777788899999999998 321 1233333322221122 236899


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhc
Q 040580          308 LHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFK  384 (412)
Q Consensus       308 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~  384 (412)
                      |..+|+...+.-. -+...+...++-..+.|+.+.+..+|+....    ....|...+..=.. |+...+..++.+..
T Consensus       339 ar~ife~al~~~~-~~~~~~~~yid~e~~~~~~~~aR~l~er~~k----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          339 PYNIFSSGLLKHP-DSTLLKEEFFLFLLRIGDEENARALFKRLEK----TSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC----BHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999998876421 1344556667777788999999999999821    23334443333234 88888878777654

>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=98.73  E-value=7.2e-07  Score=69.90  Aligned_cols=127  Identities=9%  Similarity=-0.077  Sum_probs=67.1

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+.. +.+..++..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34555555556666666666666655542 2245555555555666666666666666655543 334555555555666


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCHHhHHHH--HHHHHhcCChHHHHHHHHHH
Q 040580          126 RIGCFNEIISIIDQVSCRNADLLPEVYSRA--ISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--i~~~~~~g~~~~a~~~~~~m  175 (412)
                      ..|++++|.+.|++..+.. +.++..+..+  ...+...|++++|+..+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666666666555443 2233333222  22244455555555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.71  E-value=6.7e-07  Score=66.10  Aligned_cols=96  Identities=17%  Similarity=0.146  Sum_probs=46.5

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..+..+...+...|++++|...++++.+.. +.+..++..+...+.+.|++++|...|+++.+.. +.++.++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            344444444455555555555555544432 2334444555555555555555555555544432 23344445555555


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 040580          160 GKQGQLELMENTLKEMVS  177 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~  177 (412)
                      ...|++++|...|+++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            555555555555555444

>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=1.2e-05  Score=69.79  Aligned_cols=211  Identities=9%  Similarity=-0.094  Sum_probs=130.0

Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPE---VYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      .+..+.+....|+..+...+...+.-.-  +   .++.    .....+..   .+...+..+...|++++|..++++..+
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~~--~---~~~~----~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIPI--I---HFYE----VLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCCT--H---HHHH----TTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcCH--H---HHhC----CCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            3444444334677666666666554221  1   1111    11122222   233346677788888888888888776


Q ss_pred             CCC-CCChH----HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc
Q 040580          178 RGF-SVDSA----TGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL  252 (412)
Q Consensus       178 ~g~-~p~~~----~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  252 (412)
                      ... .|+..    .+..+...+...|++++|...++...+.....+.                              ...
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~------------------------------~~~  153 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGID------------------------------VYQ  153 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSC------------------------------TTH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhccccc------------------------------HHH
Confidence            421 22211    2223555556667777777777777663221110                              000


Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHH----c-CCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHh----CCCCC
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSE----A-GFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKH----ESVGP  322 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~p  322 (412)
                      ...+++.+...|...|++++|+..|++..+    . +..|. ..++..+...|.+.|++++|...+++..+    .+..+
T Consensus       154 ~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~  233 (293)
T 3u3w_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHH
Confidence            124678888888888888888888887763    1 22233 34788899999999999999999988764    34444


Q ss_pred             C-HhhHHHHHHHHHhccc-cchHHHHHHhc
Q 040580          323 D-LVTYGCVVDAYLDKRL-GRNLDFGLSKM  350 (412)
Q Consensus       323 ~-~~~~~~li~~~~~~~~-~~~a~~~~~~m  350 (412)
                      . ..+|..+-.+|.+.|+ .++|.+.+++.
T Consensus       234 ~~~~~~~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             THHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            3 6788888889999995 48888887665

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.69  E-value=3.6e-06  Score=73.05  Aligned_cols=163  Identities=6%  Similarity=-0.136  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCc-C----HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC---CC--HH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVL-S----VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD---LL--PE  150 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~--~~  150 (412)
                      .+...+..+...|++++|.+.++...+..... +    ...+..+...+...|++++|.+.+++.......   +.  ..
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            33344445555555555555555554432110 0    122333444455555555555555554432110   11  22


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHH---C-CCCC--ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVS---R-GFSV--DSATGNAFIIYYSRFGSLTEMETAYGRLKRS----RHLI-DK  219 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~---~-g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~  219 (412)
                      +|+.+...|...|++++|+..|++..+   . +-.+  ...++..+...|.+.|++++|...+++..+.    +... -.
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            555555555555666666555555441   1 1011  1134555555555566666666555554332    1111 13


Q ss_pred             HHHHHHHHHHHhcccHHHH-HHHHH
Q 040580          220 EGIRAVSFTYLKERKFFML-GEFLR  243 (412)
Q Consensus       220 ~~~~~li~~~~~~~~~~~a-~~~~~  243 (412)
                      .+|..+...|.+.|++++| ...++
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~  261 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            4455555555555655555 44343

>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=98.69  E-value=2.2e-06  Score=70.39  Aligned_cols=129  Identities=11%  Similarity=0.032  Sum_probs=107.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+..+...+...|++++|...|+...    .|+..++..+..++.+.|++++|.+.|++..+.+ +.++..|..+...+.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            34556677889999999999998774    6788899999999999999999999999988765 556778999999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCC--------------C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          161 KQGQLELMENTLKEMVSRGFS--------------V-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~g~~--------------p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      ..|++++|+..|++..+....              | ....+..+..++.+.|++++|...|+...+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999998875321              1 12567778888999999999999999988764

>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=98.68  E-value=1.3e-06  Score=68.48  Aligned_cols=129  Identities=9%  Similarity=-0.019  Sum_probs=85.4

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..+..+...+...|++++|...|+...+.. +.+..++..+..++...|++++|.+.+++..... +.++..|..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            445666667777788888888887777654 4467777777777777788888888777776654 44566777777777


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGN--AFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      ...|++++|...|++..+.... +...+.  .....+.+.|++++|...+....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777777777777664221 233332  23333556667777766665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.68  E-value=1.4e-06  Score=64.38  Aligned_cols=112  Identities=13%  Similarity=0.025  Sum_probs=64.6

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|..+++.+.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            3455556666666666666666666665542 2345556666666666666666666666666543 3455566666666


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      +...|++++|.+.|+++.+.. +.++..+..+...
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  120 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA  120 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            666666666666666665443 2333444444333

>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=98.66  E-value=3.2e-07  Score=73.13  Aligned_cols=97  Identities=9%  Similarity=-0.001  Sum_probs=41.2

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH-HHccCCH--HHHHHHHHHHhhcCCCCCHHhHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA-YGRIGCF--NEIISIIDQVSCRNADLLPEVYSRA  155 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~~l  155 (412)
                      ...+..+...+...|++++|...|+...+.. +.+...+..+..+ +...|++  ++|...|++..+.+ +.++..+..+
T Consensus        44 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  121 (177)
T 2e2e_A           44 SEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTRAMIDKALALD-SNEITALMLL  121 (177)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            3344444444444444444444444444332 2233344444444 3344444  44444444444332 2233344444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH
Q 040580          156 ISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       156 i~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ...+...|++++|...|++..+
T Consensus       122 a~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          122 ASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHh
Confidence            4444444444444444444444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.64  E-value=2e-05  Score=73.56  Aligned_cols=352  Identities=8%  Similarity=-0.114  Sum_probs=203.7

Q ss_pred             CCC-ChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC-hHHHHHHH
Q 040580           25 HPK-NGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF-VLEAQVVW  102 (412)
Q Consensus        25 ~~~-~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a~~~~  102 (412)
                      +.| +++.|+.+|++...           .+-. |+++.+..+|++....  .|+...|..-+.-..+.++ .+....+|
T Consensus         6 ~~~~~i~~aR~vyer~l~-----------~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~f   71 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARR-----------LYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVY   71 (493)
T ss_dssp             ------CCHHHHHHHHHH-----------HHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHH
T ss_pred             HcCcchHHHHHHHHHHHH-----------HCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            456 37788888877543           1111 7899999999999874  5799999988887777663 46677888


Q ss_pred             HHHHhC-CC-CcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCH--HhHHHHHHHHHh-------------
Q 040580          103 EELLSS-SF-VLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNADLLP--EVYSRAISCFGK-------------  161 (412)
Q Consensus       103 ~~m~~~-~~-~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~-------------  161 (412)
                      +..+.. |. +++...|...+..+..    .++.+.+.++|++....  ++..  ..|......-..             
T Consensus        72 e~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~  149 (493)
T 2uy1_A           72 EFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PMGSLSELWKDFENFELELNKITGKKIVGDT  149 (493)
T ss_dssp             HHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CCTTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hhhhHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            887763 43 4477889988887653    46788999999999763  2221  133322221111             


Q ss_pred             cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhc--CC-----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc
Q 040580          162 QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRF--GS-----LTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK  234 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--g~-----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  234 (412)
                      .+.+..|..+++++...--..+...|...+.--...  |-     .+.+..+|++..... +.++..|...+..+.+.|+
T Consensus       150 ~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~  228 (493)
T 2uy1_A          150 LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQ  228 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCC
Confidence            122333444444443210001233555544432221  11     345677888887753 4568889888998999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC---------CCC---cHhHHHHHHHHHHcc
Q 040580          235 FFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG---------FHP---DLTTFNIRAVAFSRM  302 (412)
Q Consensus       235 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---------~~p---~~~~~~~ll~~~~~~  302 (412)
                      +++|.+++++.... +. +...|..    |+...+.++.   ++.+.+.-         ..+   ....|...+....+.
T Consensus       229 ~~~ar~i~erAi~~-P~-~~~l~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~  299 (493)
T 2uy1_A          229 KEKAKKVVERGIEM-SD-GMFLSLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKK  299 (493)
T ss_dssp             HHHHHHHHHHHHHH-CC-SSHHHHH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CC-cHHHHHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHc
Confidence            99999999986444 32 2233332    2221111111   23322210         011   124566666666678


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-ccccchHHHHHHhc-cCC-CCCCcccHHHHHHHHhc-CCcccHHH
Q 040580          303 SMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLD-KRLGRNLDFGLSKM-NLD-DSPVVSTDPYVFEAFGK-GDFHSSSE  378 (412)
Q Consensus       303 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~~~~~~a~~~~~~m-~~~-~~p~~~~~~~li~~~~~-~~~~~a~~  378 (412)
                      +..+.|..+|++. ... .++...|......-.+ .++.+.|.++|+.. ..- ..|+  .+...++...+ |+.+.|..
T Consensus       300 ~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~--~~~~yid~e~~~~~~~~aR~  375 (493)
T 2uy1_A          300 RGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTL--LKEEFFLFLLRIGDEENARA  375 (493)
T ss_dssp             HCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHH--HHHHHHHHHHHHTCHHHHHH
T ss_pred             CCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHH--HHHHHHHHHHHcCCHHHHHH
Confidence            8899999999998 321 1234444322222222 33688999999988 322 2222  23444554555 88888888


Q ss_pred             HHHHhccCchHHHHHHHHHHHHcCccccc
Q 040580          379 AFLEFKRQRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       379 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                      +|.+.. .....|...++--...|+.+.+
T Consensus       376 l~er~~-k~~~lw~~~~~fE~~~G~~~~~  403 (493)
T 2uy1_A          376 LFKRLE-KTSRMWDSMIEYEFMVGSMELF  403 (493)
T ss_dssp             HHHHSC-CBHHHHHHHHHHHHHHSCHHHH
T ss_pred             HHHHHH-HHHHHHHHHHHHHHHCCCHHHH
Confidence            888763 4566677666655556665443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.64  E-value=1.2e-06  Score=65.36  Aligned_cols=94  Identities=11%  Similarity=0.065  Sum_probs=46.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      +......+.+.|++++|...|++.++.. +.+..+|..+..++.+.|++++|++.|++..+.+ +.++..|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            4444444555555555555555554443 3344455555555555555555555555544433 2334445555555555


Q ss_pred             cCChHHHHHHHHHHHH
Q 040580          162 QGQLELMENTLKEMVS  177 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~  177 (412)
                      .|++++|++.|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            5555555555555444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.64  E-value=1.1e-06  Score=65.41  Aligned_cols=117  Identities=9%  Similarity=-0.067  Sum_probs=59.1

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAY  124 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  124 (412)
                      ..+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++...+.. +.+...+..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            344445555555555555555555555432 2244455555555555555555555555555442 33345555555555


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC
Q 040580          125 GRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ  164 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  164 (412)
                      .+.|++++|.+.|++..+.. +.++..+..+...+.+.|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            55555555555555554433 2234444444444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.64  E-value=3.1e-07  Score=74.74  Aligned_cols=156  Identities=11%  Similarity=-0.035  Sum_probs=77.6

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHh----CCC-CcCHHHHHHHHHHHHccCCH
Q 040580           56 RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLS----SSF-VLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~-~~~~~~~~~li~~~~~~~~~  130 (412)
                      ..|++++|.++++.+... ......++..+...+...|++++|...+++..+    .+. +....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345555555533333221 112344555555555666666666666555543    111 12334556666666666666


Q ss_pred             HHHHHHHHHHhhc--CCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCC
Q 040580          131 NEIISIIDQVSCR--NADLL----PEVYSRAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGS  199 (412)
Q Consensus       131 ~~a~~~~~~m~~~--~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~  199 (412)
                      ++|.+.+++..+.  ..+.+    ..++..+...+...|++++|...+++....    +-.+ -..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            6666666554332  01111    124555566666666666666666655421    1100 11234555566666677


Q ss_pred             HHHHHHHHHHHHh
Q 040580          200 LTEMETAYGRLKR  212 (412)
Q Consensus       200 ~~~a~~~~~~~~~  212 (412)
                      +++|...+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7776666665543

>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=1.4e-06  Score=65.02  Aligned_cols=98  Identities=5%  Similarity=-0.103  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAY  124 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  124 (412)
                      ..+......+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|...|+..++.+ +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            345555556666666666666666665542 2345556666666666666666666666666544 44455666666666


Q ss_pred             HccCCHHHHHHHHHHHhhcC
Q 040580          125 GRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       125 ~~~~~~~~a~~~~~~m~~~~  144 (412)
                      ...|++++|.+.|++..+.+
T Consensus        92 ~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHCCCHHHHHHHHHHHHHHC
Confidence            66666666666666665443

>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=1.5e-06  Score=65.06  Aligned_cols=99  Identities=8%  Similarity=0.013  Sum_probs=57.8

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      +...+..+...+.+.|++++|...|+...+.. +.+..++..+..++...|++++|.+.+++..+.. +.++..+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            34455555566666666666666666665543 3355566666666666666666666666655543 334455556666


Q ss_pred             HHHhcCChHHHHHHHHHHHHC
Q 040580          158 CFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      .+.+.|++++|...|++..+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHh
Confidence            666666666666666665543

>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=98.62  E-value=1.9e-07  Score=75.98  Aligned_cols=158  Identities=16%  Similarity=0.056  Sum_probs=87.1

Q ss_pred             cccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCC-CC--------------H
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLL-PD--------------N   79 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~--------------~   79 (412)
                      ..+......|+++++...++.-.+.   ....+..+...+...|++++|+..|++..+.... |+              .
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A            9 HHSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             -------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             chhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            3344445556666666666543322   4456777777888888888888888888764211 10              1


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..+..+..++.+.|++++|...++...+.. +.+...+..+..++...|++++|.+.|++..+.. +-++..+..+...+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            566666666777777777777777776653 4456667777777777777777777777766553 33455666666666


Q ss_pred             HhcCChHHHH-HHHHHHHH
Q 040580          160 GKQGQLELME-NTLKEMVS  177 (412)
Q Consensus       160 ~~~g~~~~a~-~~~~~m~~  177 (412)
                      ...++.+++. ..|..|..
T Consensus       167 ~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          167 NKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHHHhc
Confidence            6555555554 44444433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.61  E-value=7.8e-07  Score=72.36  Aligned_cols=151  Identities=7%  Similarity=-0.101  Sum_probs=63.6

Q ss_pred             CCCChHHHHH---HHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHh----cCCCC-CHHhHHHHHHHHHhcCChH
Q 040580           25 HPKNGDLARK---IIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKS----EGLLP-DNSTLCALMLCYANNGFVL   96 (412)
Q Consensus        25 ~~~~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~p-~~~~~~~ll~~~~~~~~~~   96 (412)
                      ..|++++|.+   .+..-+.....++..+...+...|++++|...+++...    .|..| ...++..+...+...|+++
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            3455555555   32221112333444555555555555555555555433    11111 1233444444555555555


Q ss_pred             HHHHHHHHHHhC----CCC--cCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCCHH----hHHHHHHHHHhcCCh
Q 040580           97 EAQVVWEELLSS----SFV--LSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA-DLLPE----VYSRAISCFGKQGQL  165 (412)
Q Consensus        97 ~a~~~~~~m~~~----~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~----~~~~li~~~~~~g~~  165 (412)
                      +|...+++..+.    +-.  ....++..+...+...|++++|.+.+++...... ..++.    ++..+...+...|++
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            555555544432    101  1123344455555555555555555554432110 01111    234444445555555


Q ss_pred             HHHHHHHHHH
Q 040580          166 ELMENTLKEM  175 (412)
Q Consensus       166 ~~a~~~~~~m  175 (412)
                      ++|...+++.
T Consensus       164 ~~A~~~~~~a  173 (203)
T 3gw4_A          164 LEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555444443

>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=1.3e-06  Score=65.38  Aligned_cols=118  Identities=10%  Similarity=-0.035  Sum_probs=96.3

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            55678888889999999999999999988763 3367888889999999999999999999998865 557888999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG  163 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  163 (412)
                      ++.+.|++++|.+.|++..+.. +.++..+..+...+...|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            9999999999999999987654 334456666666665544

>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=1.8e-06  Score=64.26  Aligned_cols=118  Identities=8%  Similarity=0.034  Sum_probs=69.0

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      ...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.+++..... +.++..+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3455556666666666666666666666543 3455666666666666666666666666665543 3345566666666


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 040580          159 FGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGS  199 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  199 (412)
                      +...|++++|...|++..+... .+...+..+..++.+.|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhc
Confidence            6666666666666666655421 133444445555544443

>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=98.58  E-value=5.3e-07  Score=77.83  Aligned_cols=97  Identities=8%  Similarity=-0.080  Sum_probs=52.7

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      ...+..+...+.+.|++++|...|+...+.. +.+...|..+..++.+.|++++|.+.+++..+.+ +-++..+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3444555555555556666665555555543 3345555555555556666666666655554432 2334455555555


Q ss_pred             HHhcCChHHHHHHHHHHHH
Q 040580          159 FGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~  177 (412)
                      +...|++++|+..|++..+
T Consensus        82 ~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5556666666655555543

>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=98.58  E-value=8.3e-05  Score=65.25  Aligned_cols=176  Identities=9%  Similarity=-0.110  Sum_probs=124.0

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc-C-C
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG-FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI-G-C  129 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~-~  129 (412)
                      ...+.+..++|+++++++.... +-+..+|+.--..+...+ .+++++.+++.+.+.. +-+..+|+.-...+.+. + +
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC
Confidence            3344556678999999998864 225566777777777777 5999999999998876 66778888877777776 6 8


Q ss_pred             HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChH--------HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC--
Q 040580          130 FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLE--------LMENTLKEMVSRGFSVDSATGNAFIIYYSRFGS--  199 (412)
Q Consensus       130 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--  199 (412)
                      +++++++++++.+.+ +-+..+|+.-...+.+.|.++        ++++.++++.+..+. |...|+-....+.+.++  
T Consensus       141 ~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             CHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCC
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccc
Confidence            889999999998765 456667776555555545555        888888888886543 67777777777777765  


Q ss_pred             -----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcc
Q 040580          200 -----LTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKER  233 (412)
Q Consensus       200 -----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  233 (412)
                           ++++.+.+.+..... +-|...|+-+-..+.+.|
T Consensus       219 ~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence                 567777777666544 235666665555554444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.57  E-value=1.1e-06  Score=67.78  Aligned_cols=96  Identities=11%  Similarity=0.066  Sum_probs=55.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+..+...+.+.|++++|...|+...+.. |.+...|..+..+|.+.|++++|.+.|++..+.+ +-++..|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            44555555556666666666666665543 3455556666666666666666666666655544 334455555666666


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 040580          161 KQGQLELMENTLKEMVSR  178 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~  178 (412)
                      +.|++++|+..|++..+.
T Consensus       116 ~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666666665553

>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=8.5e-07  Score=76.56  Aligned_cols=193  Identities=11%  Similarity=-0.021  Sum_probs=126.1

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...+..+...+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|...++...+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34567778888999999999999999998863 3378889999999999999999999999999875 567889999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH
Q 040580          123 AYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTE  202 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  202 (412)
                      ++...|++++|.+.|++..+.+ +-++..+...+....+.   .++ .-+......-..++..... .+..+ ..|+.++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~i~~-~l~~l-~~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRI---AKK-KRWNSIEERRIHQESELHS-YLTRL-IAAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHH---HHH-HHHHHHHHTCCCCCCHHHH-HHHHH-HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHH---HHH-HHHHHHHHHHHhhhHHHHH-HHHHH-HHHHHHH
Confidence            9999999999999999886543 11111222122211111   111 1122233333333333333 33333 2578888


Q ss_pred             HHHHHHHHHhCCCCCCHH-HHHHHHHHHHhc-ccHHHHHHHHHHHh
Q 040580          203 METAYGRLKRSRHLIDKE-GIRAVSFTYLKE-RKFFMLGEFLRDVG  246 (412)
Q Consensus       203 a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~-~~~~~a~~~~~~~~  246 (412)
                      |.+.++...+.  .|+.. ....+-..+.+. +.++++.++|.+..
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~  197 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVD  197 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            88888776654  34433 333333333333 55677777777653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.56  E-value=2.5e-05  Score=67.66  Aligned_cols=124  Identities=5%  Similarity=-0.135  Sum_probs=66.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC---CCC--HHHHHHHHHHHHhcccHHHHHHHHHHHh----cCCCCc--chHHHHHHH
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRH---LID--KEGIRAVSFTYLKERKFFMLGEFLRDVG----LGRKDL--GNLLWNLLL  261 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~---~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~--~~~~~~~li  261 (412)
                      .+...|++++|...++...+...   .+.  ..+++.+...|...|++++|.+.+++.-    ..+.++  ...+++.+.
T Consensus       124 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg  203 (293)
T 2qfc_A          124 YVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHA  203 (293)
T ss_dssp             HHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHH
Confidence            33444555555555555443211   111  2244444444445555555554444421    111111  124677777


Q ss_pred             HHHhcCCChHHHHHHHHHHHHc----CCCCc-HhHHHHHHHHHHccCChhHH-HHHHHHHH
Q 040580          262 LSYAGNFKMKSLQREFMRMSEA----GFHPD-LTTFNIRAVAFSRMSMFWDL-HLSLEHMK  316 (412)
Q Consensus       262 ~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a-~~~~~~m~  316 (412)
                      ..|...|++++|+..+++..+.    +..+. ..+|..+...|.+.|+.++| ...+++..
T Consensus       204 ~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          204 KALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            7888888888888887776532    11111 45677777788888888888 66666543

>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=98.54  E-value=2.3e-06  Score=75.94  Aligned_cols=124  Identities=10%  Similarity=-0.120  Sum_probs=66.4

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC--------------HHhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD--------------NSTLCALMLCYANNGFVLEAQVVWEELLSS  108 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  108 (412)
                      +...|..+...+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|...++..++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344566666666666666666666666665421111              245555555555555555555555555554


Q ss_pred             CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580          109 SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus       109 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      . +.+...|..+..+|...|++++|...|++..+.. +-++..+..+...+.+.|+.+++
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            3 3345555555555555555555555555554443 33344555555555555555544

>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=98.53  E-value=1.8e-06  Score=68.65  Aligned_cols=122  Identities=6%  Similarity=-0.036  Sum_probs=99.0

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH-HHhcCCh--H
Q 040580           90 ANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC-FGKQGQL--E  166 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~--~  166 (412)
                      ...|++++|...++...+.. +.+...|..+...|...|++++|...|++..+.+ +.++..+..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            45678889999999888765 5678899999999999999999999999988765 4567788888888 7789998  9


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          167 LMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       167 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      +|...|++..+.... +...+..+...+...|++++|...++...+..
T Consensus        99 ~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            999999999886322 46677788889999999999999999988764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.53  E-value=2.8e-06  Score=72.12  Aligned_cols=187  Identities=8%  Similarity=-0.073  Sum_probs=94.5

Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHH-------HHHHHccCCHHHHHHHHHHHhh------------cCC----C-
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDL-------MDAYGRIGCFNEIISIIDQVSC------------RNA----D-  146 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-------i~~~~~~~~~~~a~~~~~~m~~------------~~~----~-  146 (412)
                      ..++...|.+.|.++.+.. +-....|..+       ...+.+.++..+++..++.-..            .|.    . 
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            4667777777777777654 4445666655       3444444444444444443322            110    0 


Q ss_pred             --CC-HHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----
Q 040580          147 --LL-PEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDK----  219 (412)
Q Consensus       147 --~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----  219 (412)
                        .+ .+.+-.+...+...|++++|.++|..+...+  |+....-.+...+.+.+++++|+..|+...+.   |++    
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~---~d~~~~~  171 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW---PDKFLAG  171 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC---SCHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc---CCcccHH
Confidence              00 1133345556666777777777776665543  33323333444566677777777777533321   222    


Q ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc--chHHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          220 EGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL--GNLLWNLLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       220 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      ..+..+-.++...|++++|...|++.......|  ..........++.+.|+.++|..+|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            234444555555555555555555543222111  1234444455555556666666666655543

>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=98.53  E-value=3e-05  Score=68.06  Aligned_cols=175  Identities=7%  Similarity=-0.072  Sum_probs=133.2

Q ss_pred             cccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCC-ChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc-C-Ch
Q 040580           22 HQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKK-KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN-G-FV   95 (412)
Q Consensus        22 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-~-~~   95 (412)
                      ...+.+..++|+..++.+...   +..+|+.--..+...| .++++++.++.+.... +-+..+|+.-...+.+. + ++
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            344555667899988887753   5566776666666777 5999999999999875 33777888877777666 6 89


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH--------HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC---
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN--------EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ---  164 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~---  164 (412)
                      ++++.+++.+.+.. +.|..+|+--.-.+.+.|.++        ++++.++++.+.+ +-+...|+..-..+.+.+.   
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccccc
Confidence            99999999999876 668888887777766666666        8999999998877 5677789888877777776   


Q ss_pred             ----hHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH
Q 040580          165 ----LELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSL  200 (412)
Q Consensus       165 ----~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  200 (412)
                          ++++++.+++....... |...|+-+-..+.+.|+.
T Consensus       220 ~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCC
T ss_pred             chHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCC
Confidence                68899999888875432 667787766666666543

>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=98.51  E-value=6.7e-07  Score=68.98  Aligned_cols=94  Identities=17%  Similarity=0.163  Sum_probs=44.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      +..+...+.+.|++++|...|+...+.+ +.+...|..+..+|.+.|++++|.+.|++....+ +-++..+..+..++..
T Consensus        24 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           24 LYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            3344444445555555555555544433 3344444445555555555555555555544433 2333444444445555


Q ss_pred             cCChHHHHHHHHHHHH
Q 040580          162 QGQLELMENTLKEMVS  177 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~  177 (412)
                      .|++++|...|++..+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555544443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.49  E-value=1.9e-06  Score=66.56  Aligned_cols=103  Identities=7%  Similarity=-0.028  Sum_probs=88.8

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          113 SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                      +...+..+...+.+.|++++|.+.|++....+ +-++..|..+..++...|++++|+..|++..+.... +...+..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHH
Confidence            56788889999999999999999999998876 667889999999999999999999999999885322 5677888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRHLIDK  219 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~~~~~  219 (412)
                      ++.+.|++++|...|+...+..  |+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~--~~~  137 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS--NDE  137 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCH
Confidence            9999999999999999998764  444

>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=98.47  E-value=1.5e-06  Score=67.00  Aligned_cols=110  Identities=12%  Similarity=0.060  Sum_probs=85.8

Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 040580          101 VWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGF  180 (412)
Q Consensus       101 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  180 (412)
                      .|+.+.+.. +.+...+..+...+.+.|++++|...|++....+ +.++..|..+..++...|++++|+..|++......
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p   86 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI   86 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            455555543 3456677888888889999999999999887765 56777888888888999999999999998877532


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          181 SVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       181 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      . +...+..+..++...|++++|...|+...+.
T Consensus        87 ~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           87 X-EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             T-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2 4567777888888999999999988887764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.47  E-value=1.3e-05  Score=68.06  Aligned_cols=188  Identities=8%  Similarity=-0.050  Sum_probs=133.3

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCHHhHHHH-------HHHHHhcCChHHHHHHHHHHHHCCCCCCh--------------
Q 040580          126 RIGCFNEIISIIDQVSCRNADLLPEVYSRA-------ISCFGKQGQLELMENTLKEMVSRGFSVDS--------------  184 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~--------------  184 (412)
                      ..++...|.+.|.+..+.+ +-.++.|..+       ...+.+.+...+++..+..-.+  +.|+.              
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            5799999999999998876 5567788877       4555555555555554444333  22221              


Q ss_pred             --------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc-chH
Q 040580          185 --------ATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL-GNL  255 (412)
Q Consensus       185 --------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~  255 (412)
                              ...-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|...|+.......+. ...
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                    123345677888999999999998887654  544466666667888999999999998553332111 124


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc--HhHHHHHHHHHHccCChhHHHHHHHHHHhC
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD--LTTFNIRAVAFSRMSMFWDLHLSLEHMKHE  318 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  318 (412)
                      ++..+-.++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            677888899999999999999998874332254  335556777888999999999999998874

>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=98.45  E-value=1.3e-05  Score=58.23  Aligned_cols=95  Identities=15%  Similarity=0.044  Sum_probs=44.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+..+...+...|++++|...++...+.. +.+...+..+..++.+.|++++|...+++..+.. +.++..+..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34444444444555555555555444432 2344444444455555555555555555444332 223344444444455


Q ss_pred             hcCChHHHHHHHHHHHH
Q 040580          161 KQGQLELMENTLKEMVS  177 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~  177 (412)
                      ..|++++|...+++..+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555544444

>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=98.44  E-value=6.9e-06  Score=61.08  Aligned_cols=95  Identities=13%  Similarity=0.040  Sum_probs=49.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+..+...+.+.|++++|...|+..++.. +.+...|..+..++.+.|++++|.+.|++..+.+ +.++..|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444445555555555555555555443 3344555555555555555555555555554443 233445555555555


Q ss_pred             hcCChHHHHHHHHHHHH
Q 040580          161 KQGQLELMENTLKEMVS  177 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~  177 (412)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555555544

>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=98.44  E-value=1.3e-05  Score=58.31  Aligned_cols=110  Identities=10%  Similarity=-0.118  Sum_probs=90.1

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++...+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3467778888889999999999999998763 3477888889999999999999999999998875 5578889999999


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      +...|++++|.+.+++..+.+ +.++..+..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  113 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHE-ANNPQLKEGLQ  113 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHcC-CCCHHHHHHHH
Confidence            999999999999999987654 34444554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.42  E-value=3.7e-06  Score=60.67  Aligned_cols=94  Identities=11%  Similarity=-0.150  Sum_probs=39.0

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCc--CHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVL--SVQVLSDLMDA  123 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~  123 (412)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+.. +.  +..++..+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            33344444444444444444444444332 1233334444444444444444444444444332 22  23444444444


Q ss_pred             HHcc-CCHHHHHHHHHHHh
Q 040580          124 YGRI-GCFNEIISIIDQVS  141 (412)
Q Consensus       124 ~~~~-~~~~~a~~~~~~m~  141 (412)
                      +.+. |++++|.+.+++..
T Consensus        86 ~~~~~~~~~~A~~~~~~~~  104 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAK  104 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHG
T ss_pred             HHHHhCCHHHHHHHHHHHh
Confidence            4444 44444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.42  E-value=0.00014  Score=66.63  Aligned_cols=159  Identities=12%  Similarity=-0.025  Sum_probs=86.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCcC----------------HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-C
Q 040580           86 MLCYANNGFVLEAQVVWEELLSSSFVLS----------------VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADL-L  148 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~  148 (412)
                      .+.+.+.|++++|.+.|..+.+......                ...+..|...|.+.|++++|.+.+.++...--.. +
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            3456677888888888888876532111                1235667777777777777777777654321111 1


Q ss_pred             HH----hHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC--
Q 040580          149 PE----VYSRAISCFGKQGQLELMENTLKEMVS----RGFSVD-SATGNAFIIYYSRFGSLTEMETAYGRLKRS--RH--  215 (412)
Q Consensus       149 ~~----~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~--  215 (412)
                      ..    +.+.+-..+...|+++.+..++.+...    .+..+. ..++..+...+...|++++|..+++++...  +.  
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            11    222222333345667777777766533    222222 245556666677777777777776665432  11  


Q ss_pred             CC-CHHHHHHHHHHHHhcccHHHHHHHHHH
Q 040580          216 LI-DKEGIRAVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       216 ~~-~~~~~~~li~~~~~~~~~~~a~~~~~~  244 (412)
                      .+ ...++..++..|...|++++|...+++
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  200 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTA  200 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            11 123444445555555555555555544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.40  E-value=6.1e-06  Score=59.46  Aligned_cols=101  Identities=9%  Similarity=-0.039  Sum_probs=84.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC--CHHhHHHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADL--LPEVYSRA  155 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~l  155 (412)
                      +...+..+...+...|++++|...++...+.. +.+...+..+..++...|++++|.+.|++..+.. +.  ++..+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            45567778888889999999999999988865 5577888889999999999999999999887654 34  57788889


Q ss_pred             HHHHHhc-CChHHHHHHHHHHHHCCC
Q 040580          156 ISCFGKQ-GQLELMENTLKEMVSRGF  180 (412)
Q Consensus       156 i~~~~~~-g~~~~a~~~~~~m~~~g~  180 (412)
                      ...+... |++++|.+.+++......
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            9999999 999999999999887643

>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=98.40  E-value=1e-05  Score=71.68  Aligned_cols=147  Identities=12%  Similarity=0.071  Sum_probs=97.1

Q ss_pred             CChhHHHHHHHHHHhcCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC---------------HHHHHHHH
Q 040580           58 KKPHLAHQLVNTVKSEGLLP-DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS---------------VQVLSDLM  121 (412)
Q Consensus        58 ~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---------------~~~~~~li  121 (412)
                      +++++|.+.|+.....  .| +...+..+...+.+.|++++|...|++.++.. +.+               ..+|..+.
T Consensus       127 ~~~~~A~~~~~~a~~~--~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla  203 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEE--KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL-EYESSFSNEEAQKAQALRLASHLNLA  203 (336)
T ss_dssp             EEEECCCCGGGCCHHH--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh-hccccCChHHHHHHHHHHHHHHHHHH
Confidence            3445555555443322  22 35567777788888888888888888887754 222               46777777


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCH
Q 040580          122 DAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSL  200 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~  200 (412)
                      .+|.+.|++++|.+.|++..+.+ +.++..|..+..++...|++++|+..|++..+.  .| +...+..+..++.+.|+.
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~  280 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQ  280 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHH
Confidence            77777777777777777776654 445667777777777777777777777777664  23 445666666667777777


Q ss_pred             HHH-HHHHHHH
Q 040580          201 TEM-ETAYGRL  210 (412)
Q Consensus       201 ~~a-~~~~~~~  210 (412)
                      +++ ...+..|
T Consensus       281 ~~a~~~~~~~~  291 (336)
T 1p5q_A          281 LAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            666 3344444

>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=98.39  E-value=1.2e-05  Score=60.66  Aligned_cols=98  Identities=8%  Similarity=-0.077  Sum_probs=49.9

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..++...|++++|...+++..+.+ +.++..+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            34445555555555555555555555555443 3344555555555555555555555555554433 233445555555


Q ss_pred             HHHhcCChHHHHHHHHHHHH
Q 040580          158 CFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~  177 (412)
                      .+...|++++|+..|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.39  E-value=6.7e-06  Score=62.72  Aligned_cols=93  Identities=15%  Similarity=0.111  Sum_probs=45.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ  162 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  162 (412)
                      ..+...+.+.|++++|...|+...+.+ +.+...|..+..++.+.|++++|...|++....+ +-++..+..+..++...
T Consensus        22 ~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           22 YALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHc
Confidence            334444445555555555555554443 3344445555555555555555555555554433 33344444455555555


Q ss_pred             CChHHHHHHHHHHHH
Q 040580          163 GQLELMENTLKEMVS  177 (412)
Q Consensus       163 g~~~~a~~~~~~m~~  177 (412)
                      |++++|...|++..+
T Consensus       100 g~~~~A~~~~~~al~  114 (142)
T 2xcb_A          100 GDLDGAESGFYSARA  114 (142)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.38  E-value=5.4e-06  Score=63.26  Aligned_cols=100  Identities=10%  Similarity=-0.051  Sum_probs=86.3

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...+..+...+.+.|++++|...|++..... +.+...|..+..++.+.|++++|...|+...+.+ +.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            44556677778889999999999999998864 3478888999999999999999999999999875 567788899999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcC
Q 040580          123 AYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      ++...|++++|.+.|++..+..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999987654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=2.6e-05  Score=59.44  Aligned_cols=99  Identities=8%  Similarity=-0.077  Sum_probs=66.3

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD----NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLS  118 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  118 (412)
                      +...+..+...+...|++++|.+.|++..+.  .|+    ...+..+...+...|++++|...++...+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            4555666677777777777777777777654  344    4556666666777777777777777766653 34566666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcC
Q 040580          119 DLMDAYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      .+..++...|++++|.+.|++..+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            67777777777777777777666543

>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=98.33  E-value=9.8e-07  Score=71.74  Aligned_cols=145  Identities=11%  Similarity=0.027  Sum_probs=72.0

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC----------------HHH
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS----------------VQV  116 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~  116 (412)
                      .....|+++++.+.|+.-.... ......+..+...+...|++++|...|++..+.. +.+                ..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~   90 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISC   90 (198)
T ss_dssp             ---------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHH
Confidence            3344455555555553322110 1133455566666777777777777777776642 111                145


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHH
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYS  195 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~  195 (412)
                      +..+..+|.+.|++++|...+++..+.. +.++..+..+..++...|++++|+..|++..+.  .| +...+..+..++.
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHH
Confidence            5556666666666666666666655543 334445555566666666666666666655543  22 2334444444444


Q ss_pred             hcCCHHH
Q 040580          196 RFGSLTE  202 (412)
Q Consensus       196 ~~g~~~~  202 (412)
                      ..++.++
T Consensus       168 ~~~~~~~  174 (198)
T 2fbn_A          168 KLKEARK  174 (198)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            4443333

>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=98.33  E-value=8.1e-06  Score=60.68  Aligned_cols=95  Identities=8%  Similarity=-0.016  Sum_probs=40.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC--CCC----HHhHHHH
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA--DLL----PEVYSRA  155 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~l  155 (412)
                      +..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|...+++......  .++    +.++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3334444444444444444444444432 23344444444444444444444444444433210  001    2344444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH
Q 040580          156 ISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       156 i~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      ...+...|++++|...|++..+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4444444444444444444444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.31  E-value=1.9e-05  Score=61.73  Aligned_cols=97  Identities=11%  Similarity=0.003  Sum_probs=57.6

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      ...+..+...+.+.|++++|...|+..++.. +.+...|..+..+|.+.|++++|...|++..+.+ +-++..|..+...
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3445555555666666666666666665543 3355566666666666666666666666665544 3345566666666


Q ss_pred             HHhcCChHHHHHHHHHHHH
Q 040580          159 FGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~  177 (412)
                      +...|++++|+..|++..+
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            6666666666666666554

>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=98.31  E-value=1.4e-05  Score=60.18  Aligned_cols=100  Identities=13%  Similarity=-0.029  Sum_probs=88.4

Q ss_pred             cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 040580           42 EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLM  121 (412)
Q Consensus        42 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  121 (412)
                      .+...|..+...+...|++++|...|++..... +.+...|..+..++...|++++|...++...+.+ +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            467788889999999999999999999998864 3468889999999999999999999999999875 55788999999


Q ss_pred             HHHHccCCHHHHHHHHHHHhhc
Q 040580          122 DAYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      .++...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999999988654

>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=98.31  E-value=1.7e-05  Score=58.83  Aligned_cols=99  Identities=9%  Similarity=-0.057  Sum_probs=85.2

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...|......+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...++...+.+ +.+...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3456777788889999999999999998864 4468889999999999999999999999999875 5578899999999


Q ss_pred             HHccCCHHHHHHHHHHHhhcC
Q 040580          124 YGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      +...|++++|.+.|++..+.+
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhC
Confidence            999999999999999886643

>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=98.28  E-value=1.9e-05  Score=58.87  Aligned_cols=57  Identities=11%  Similarity=0.070  Sum_probs=25.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      ..+...+.+.|++++|+..|++.++.. |.+..+|+.+..+|.+.|++++|++.|++.
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~a   68 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKA   68 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHH
Confidence            334444444444444444444444432 233444444444444444444444444443

>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=98.27  E-value=0.0018  Score=56.52  Aligned_cols=233  Identities=9%  Similarity=0.009  Sum_probs=121.2

Q ss_pred             hcCCCh-hHHHHHHHHHHhcCCCCC-HHhHHHHHHHHHhcCC----------hHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           55 GRKKKP-HLAHQLVNTVKSEGLLPD-NSTLCALMLCYANNGF----------VLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        55 ~~~~~~-~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      .+.|.+ ++|+++++.+...  .|+ ..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-.-
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            344554 4778888888765  343 3445543333322222          456666777766654 456666766666


Q ss_pred             HHHccC--CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC-hHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 040580          123 AYGRIG--CFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ-LELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGS  199 (412)
Q Consensus       123 ~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  199 (412)
                      ++.+.+  ++++++++++++.+.+ +-+..+|+.-...+...|. ++++++.++++.+..+. |...|+.....+.+.+.
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~  194 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHP  194 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhh
Confidence            666666  3667777777776665 4555566665555556666 46777777777665433 55555554444433311


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcC-----------C
Q 040580          200 LTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGN-----------F  268 (412)
Q Consensus       200 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g  268 (412)
                      ...+-       ..+ .             ...+.++++.+.+...-...|+ |..+|+.+-..+.+.           +
T Consensus       195 ~~~~~-------~~~-~-------------~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~  252 (331)
T 3dss_A          195 QPDSG-------PQG-R-------------LPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKST  252 (331)
T ss_dssp             CC--------------C-------------CCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHH
T ss_pred             ccccc-------ccc-c-------------cchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHH
Confidence            00000       000 0             0012344444444443222222 335555444333333           3


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHH-----HHHHHHccCChhHHHHHHHHHHh
Q 040580          269 KMKSLQREFMRMSEAGFHPDLTTFNI-----RAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       269 ~~~~a~~~~~~m~~~~~~p~~~~~~~-----ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      .++++++.++++.+.  .||. .|..     ++.+....|..+++...+.++++
T Consensus       253 ~l~~el~~~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          253 VLQSELESCKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            467788888888765  5654 2322     11222234556667777777665

>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=98.26  E-value=1.4e-05  Score=59.27  Aligned_cols=112  Identities=12%  Similarity=0.114  Sum_probs=90.2

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CcC----HHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSF--VLS----VQVL  117 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~  117 (412)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+...  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3457778888899999999999999998764 44778888899999999999999999999887531  122    7788


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHH
Q 040580          118 SDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISC  158 (412)
Q Consensus       118 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  158 (412)
                      ..+..++.+.|++++|.+.|++..+..  |++.....+...
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~  121 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHH
Confidence            999999999999999999999998754  466655555443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.26  E-value=2.3e-05  Score=61.34  Aligned_cols=100  Identities=13%  Similarity=-0.101  Sum_probs=88.2

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...|..+...+.+.|++++|++.|++..+.. +-+...|..+..++.+.|++++|...|+..++.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45567888889999999999999999998864 3378889999999999999999999999999875 557899999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcC
Q 040580          123 AYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       123 ~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      +|.+.|++++|.+.|++..+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            9999999999999999987754

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.25  E-value=0.0001  Score=67.61  Aligned_cols=194  Identities=7%  Similarity=-0.025  Sum_probs=133.0

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCC----------------HHhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCcC
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPD----------------NSTLCALMLCYANNGFVLEAQVVWEELLSS-SFVLS  113 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~  113 (412)
                      .+.+.+.|++++|++.|....+......                ...+..+...|...|++++|.+.+..+.+. +-.++
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            4556788999999999999987542211                124778899999999999999999988752 11122


Q ss_pred             H----HHHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHHC--CC--
Q 040580          114 V----QVLSDLMDAYGRIGCFNEIISIIDQVSCR----NADLL-PEVYSRAISCFGKQGQLELMENTLKEMVSR--GF--  180 (412)
Q Consensus       114 ~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~--  180 (412)
                      .    .+.+.+-..+...|+.+.|.+++++....    +..+. ..++..+...+...|++++|..++++....  +.  
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            2    23444555556678999999999877542    22222 347888999999999999999999987653  22  


Q ss_pred             CC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCC----HHHHHHHHHHHHhcccHHHHHHHHHH
Q 040580          181 SV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSR--HLID----KEGIRAVSFTYLKERKFFMLGEFLRD  244 (412)
Q Consensus       181 ~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~  244 (412)
                      .| ....+..++..|...|++++|..+++......  +..+    ...+..+...+...+++++|...+.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~  241 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFE  241 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            22 23568888999999999999999998876431  1111    12333444444455555555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.25  E-value=5.9e-05  Score=57.37  Aligned_cols=99  Identities=11%  Similarity=-0.004  Sum_probs=75.5

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhH
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS----VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVY  152 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  152 (412)
                      .+...+..+...+...|++++|...|+...+..  |+    ...+..+..++...|++++|.+.+++..+.. +.++..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            356677777788888888888888888887753  44    5777778888888888888888888777654 4456677


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      ..+...+...|++++|...|++..+.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            77777888888888888888877764

>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=98.23  E-value=3.2e-05  Score=57.63  Aligned_cols=106  Identities=12%  Similarity=0.025  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CCC----hHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGF--SVD----SATG  187 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~----~~~~  187 (412)
                      ...+..+...+.+.|++++|++.|++..+.+ +-++..|+.+..+|.+.|++++|+..+++..+...  .++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4567788899999999999999999988765 55677899999999999999999999998865321  111    2356


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGI  222 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  222 (412)
                      ..+..++...|++++|...|+...+.  .|++.+.
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            66777788889999999998887764  3555443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.22  E-value=1.6e-05  Score=58.65  Aligned_cols=88  Identities=9%  Similarity=-0.030  Sum_probs=40.0

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChH
Q 040580           87 LCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLE  166 (412)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  166 (412)
                      ..+.+.|++++|...|+..++.. +.+...|..+..++.+.|++++|...|++..+.+ +-++..+..+...+...|+++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            33444444444444444444432 2344444444444444444444444444444333 223334444444444444444


Q ss_pred             HHHHHHHHHH
Q 040580          167 LMENTLKEMV  176 (412)
Q Consensus       167 ~a~~~~~~m~  176 (412)
                      +|+..|++..
T Consensus       103 ~A~~~~~~al  112 (121)
T 1hxi_A          103 AALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.17  E-value=2e-05  Score=58.16  Aligned_cols=96  Identities=10%  Similarity=-0.107  Sum_probs=80.5

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      .+..+...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|...|++..+.. +.+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            35556677888999999999999998863 3378888889999999999999999999998875 557788899999999


Q ss_pred             ccCCHHHHHHHHHHHhhc
Q 040580          126 RIGCFNEIISIIDQVSCR  143 (412)
Q Consensus       126 ~~~~~~~a~~~~~~m~~~  143 (412)
                      +.|++++|.+.|++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999988654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.13  E-value=8.2e-05  Score=55.18  Aligned_cols=89  Identities=15%  Similarity=0.041  Sum_probs=42.0

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCcCH---HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC---HHhHHHHHHHHH
Q 040580           87 LCYANNGFVLEAQVVWEELLSSSFVLSV---QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLL---PEVYSRAISCFG  160 (412)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~  160 (412)
                      ..+...|++++|...|+.+.+.. +.+.   ..+..+..++.+.|++++|...|++..+.. +.+   +.++..+..++.
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHH
Confidence            33444555555555555554432 1111   344445555555555555555555554432 122   334444555555


Q ss_pred             hcCChHHHHHHHHHHHH
Q 040580          161 KQGQLELMENTLKEMVS  177 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~  177 (412)
                      ..|++++|...|++..+
T Consensus        88 ~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.12  E-value=8.3e-06  Score=59.81  Aligned_cols=85  Identities=9%  Similarity=-0.016  Sum_probs=39.5

Q ss_pred             CCChhHHHHHHHHHHhcCC--CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHH
Q 040580           57 KKKPHLAHQLVNTVKSEGL--LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEII  134 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  134 (412)
                      .|++++|+..|++..+.+.  +-+...+..+..++...|++++|...|++..+.. +-+..++..+..++.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            3445555555555554321  1123344445555555555555555555555443 333445555555555555555555


Q ss_pred             HHHHHHhh
Q 040580          135 SIIDQVSC  142 (412)
Q Consensus       135 ~~~~~m~~  142 (412)
                      +.|++...
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555443

>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=98.11  E-value=1.4e-05  Score=74.42  Aligned_cols=117  Identities=10%  Similarity=-0.063  Sum_probs=69.4

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHH
Q 040580           54 LGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEI  133 (412)
Q Consensus        54 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  133 (412)
                      +.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++++|...+++..+.. +.+..++..+..+|.+.|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            344555555655555555542 2245666666666777777777777777776654 44566677777777777777777


Q ss_pred             HHHHHHHhhcCCCCCHHhHHHHHHH--HHhcCChHHHHHHHH
Q 040580          134 ISIIDQVSCRNADLLPEVYSRAISC--FGKQGQLELMENTLK  173 (412)
Q Consensus       134 ~~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  173 (412)
                      .+.|++..+.. +-++..+..+..+  +.+.|++++|++.++
T Consensus        94 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            77777766543 2333455555444  666677777777776

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.11  E-value=0.00011  Score=54.38  Aligned_cols=96  Identities=18%  Similarity=-0.011  Sum_probs=75.7

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCH---HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC---HHHHHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDN---STLCALMLCYANNGFVLEAQVVWEELLSSSFVLS---VQVLSDL  120 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~l  120 (412)
                      +..+...+...|++++|.+.|++..+... .+.   ..+..+..++.+.|++++|...|+...+.. +.+   ..++..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHH
Confidence            34456677788999999999999887532 122   477778888899999999999999988764 333   6778888


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcC
Q 040580          121 MDAYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      ..++.+.|++++|...|+++....
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            899999999999999999987654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.10  E-value=2.2e-05  Score=60.64  Aligned_cols=95  Identities=13%  Similarity=-0.072  Sum_probs=43.4

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCC-CCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCc-CHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGL-LPD----NSTLCALMLCYANNGFVLEAQVVWEELLSS----SFVL-SVQ  115 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~  115 (412)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...++...+.    +.++ ...
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            344555555555666666666655543210 011    123444555555555555555555554431    1000 123


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      ++..+...+...|++++|.+.+++.
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a  115 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKH  115 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4444444555555555555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.07  E-value=1.5e-05  Score=58.43  Aligned_cols=87  Identities=10%  Similarity=0.048  Sum_probs=66.9

Q ss_pred             hcCChHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           91 NNGFVLEAQVVWEELLSSS--FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      ..|++++|...|++.++.+  -+.+..++..+..+|.+.|++++|.+.|++..+.+ +-++.++..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            4578888899998888764  24456788888888999999999999999888765 45577888888888899999999


Q ss_pred             HHHHHHHHHC
Q 040580          169 ENTLKEMVSR  178 (412)
Q Consensus       169 ~~~~~~m~~~  178 (412)
                      +..|++..+.
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9988887764

>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=98.06  E-value=0.0048  Score=53.77  Aligned_cols=168  Identities=7%  Similarity=-0.119  Sum_probs=119.0

Q ss_pred             CCCChH-HHHHHHHHhhccC---hhhHHHHHHHHhcCCC----------hhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH
Q 040580           25 HPKNGD-LARKIIRYRKQEG---FVDCASLVEDLGRKKK----------PHLAHQLVNTVKSEGLLPDNSTLCALMLCYA   90 (412)
Q Consensus        25 ~~~~~~-~A~~~~~~~~~~~---~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~   90 (412)
                      +.|.+. +|...++.+...|   ..+|+.=-..+...+.          +++++.+++.+.... +-+..+|+.-.-.+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHh
Confidence            445544 7889888887644   4455543333322222          678899999998864 347888888777777


Q ss_pred             hcC--ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC-HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc-----
Q 040580           91 NNG--FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC-FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ-----  162 (412)
Q Consensus        91 ~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----  162 (412)
                      +.+  .+++++.+++.+.+.+ +.|..+|+--.-++...|. ++++++.++++.+.+ +-+..+|+.....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhccc
Confidence            777  4899999999999986 7788999988888888888 689999999999887 56777888766555544     


Q ss_pred             ---------CChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 040580          163 ---------GQLELMENTLKEMVSRGFSVDSATGNAFIIYYSR  196 (412)
Q Consensus       163 ---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  196 (412)
                               +.++++++.+.+....... |...|+-+-..+.+
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~  239 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGA  239 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHS
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence                     3466777777777664322 55556544444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.05  E-value=0.00011  Score=57.30  Aligned_cols=64  Identities=17%  Similarity=0.187  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      ..+|..+..+|.+.|++++|...+++..+.+ +.++..|..+..++...|++++|...|++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            3456666666666666666666666665544 344556666666666666666666666666553

>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=98.04  E-value=1.3e-05  Score=74.65  Aligned_cols=124  Identities=8%  Similarity=-0.116  Sum_probs=99.9

Q ss_pred             hhccccccccccCCCChHHHHHHHHHhhc---cChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHH
Q 040580           13 KFKRFNVPSHQTHPKNGDLARKIIRYRKQ---EGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCY   89 (412)
Q Consensus        13 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~   89 (412)
                      ...+..+...+.+.|++++|...+++..+   .+..+|..+..++.+.|++++|++.+++..+.. +-+..++..+..++
T Consensus         6 a~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   84 (477)
T 1wao_1            6 AEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   84 (477)
T ss_dssp             HTTSSSSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34567778889999999999999998764   367889999999999999999999999999874 34678899999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH--HHccCCHHHHHHHHH
Q 040580           90 ANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA--YGRIGCFNEIISIID  138 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~  138 (412)
                      .+.|++++|.+.|++..+.. +.+...+..+..+  +.+.|++++|.+.++
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            99999999999999998864 3344555555555  888899999999988

>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=98.04  E-value=7.8e-05  Score=69.01  Aligned_cols=124  Identities=12%  Similarity=-0.073  Sum_probs=62.6

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCC--------------HHhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPD--------------NSTLCALMLCYANNGFVLEAQVVWEELLSS  108 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  108 (412)
                      ....|..+...+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|+..++..++.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            344566666777777777777777777765321110              344444555555555555555555555544


Q ss_pred             CCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580          109 SFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus       109 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      . +.+...|..+..+|...|++++|...|++..+.. +-++..+..+...+.+.++.+++
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            3 3344455555555555555555555555554332 22223444444444444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.04  E-value=5.5e-05  Score=58.33  Aligned_cols=133  Identities=11%  Similarity=-0.045  Sum_probs=83.1

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-cC----HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-CC----H
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFV-LS----VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD-LL----P  149 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~  149 (412)
                      .++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++..+.... .+    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            45666777778888888888888777653100 11    246777778888888888888888776442100 11    2


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          150 EVYSRAISCFGKQGQLELMENTLKEMVSR----GFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       150 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      .++..+...+...|++++|...+++..+.    +..+ ....+..+...+...|++++|...+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            25666677777778888887777766432    1111 123455566666667777777776666543

>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=97.96  E-value=9.6e-05  Score=66.29  Aligned_cols=96  Identities=10%  Similarity=0.006  Sum_probs=47.5

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcC--------------C-CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEG--------------L-LPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSF  110 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g--------------~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  110 (412)
                      .+..+...+.+.|++++|++.|++..+.-              . +.+...|..+..++.+.|++++|...+++.++.. 
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            46666677777788888887777766510              0 1122334444444444444444444444444432 


Q ss_pred             CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      +.+...|..+..+|.+.|++++|.+.|++..+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~  335 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  335 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            22334444444444444444444444444433

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.94  E-value=4.8e-05  Score=67.40  Aligned_cols=114  Identities=11%  Similarity=0.055  Sum_probs=61.4

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ...+..+...+.+.|++++|+..|++....  .|+...       +...++.+++...+   .       ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~-------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K-------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H-------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H-------HHHHHHHHHH
Confidence            345667777888888999999999887764  344331       11111222211111   0       1245555555


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      |.+.|++++|...+++..+.+ +-++..|..+..+|...|++++|+..|++..+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555443 23344555555555555555555555555544

>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=97.93  E-value=0.00018  Score=66.62  Aligned_cols=122  Identities=9%  Similarity=0.087  Sum_probs=68.5

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC---------------HHHHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS---------------VQVLSDLMDAYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      ...+..+...+.+.|++++|...|++.++.. +.+               ..+|..+..+|.+.|++++|+..+++..+.
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            4456667777778888888888888777642 112               355555556666666666666666655544


Q ss_pred             CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHH
Q 040580          144 NADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEME  204 (412)
Q Consensus       144 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~  204 (412)
                      + +.++..|..+..+|...|++++|+..|++..+.  .| +...+..+..++.+.++.+++.
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            3 334445555555555566666666665555543  22 2334444444444445444433

>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=97.92  E-value=0.00017  Score=64.70  Aligned_cols=137  Identities=7%  Similarity=-0.145  Sum_probs=64.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHH
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFG  160 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  160 (412)
                      .+..+...+.+.|++++|...|++.++.-  ++..          ....       .++..... +.++.+|..+..++.
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~-------~~~~~~~~-~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAE-------DADGAKLQ-PVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSC-------HHHHGGGH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccC-------hHHHHHHH-HHHHHHHHHHHHHHH
Confidence            45666677777888888888887776520  0000          0000       00000000 112234555555555


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHH
Q 040580          161 KQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLG  239 (412)
Q Consensus       161 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  239 (412)
                      +.|++++|+..+++..+... .+...+..+..++...|++++|...|+...+.. +.+...+..+...+...++.+++.
T Consensus       285 ~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555554321 133444445555555555555555555554432 123444444455555555544443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.90  E-value=0.00019  Score=55.78  Aligned_cols=99  Identities=14%  Similarity=0.006  Sum_probs=81.0

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhc-------CC----------CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSE-------GL----------LPDNSTLCALMLCYANNGFVLEAQVVWEELLS  107 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~----------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  107 (412)
                      ..+......+.+.|++++|+..|.+....       +-          +.+...|..+..++.+.|++++|...++..++
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            44666777888889999999988887764       00          11345788888899999999999999999998


Q ss_pred             CCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC
Q 040580          108 SSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       108 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      .+ +.+...|..+..+|...|++++|...|++....+
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            75 6678899999999999999999999999987764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.79  E-value=0.00018  Score=66.72  Aligned_cols=123  Identities=12%  Similarity=0.075  Sum_probs=73.0

Q ss_pred             HhcCChHHHHHHHHHHHhC-----C--CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCC-CHH---hHHHH
Q 040580           90 ANNGFVLEAQVVWEELLSS-----S--FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR---NADL-LPE---VYSRA  155 (412)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~-----~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~-~~~---~~~~l  155 (412)
                      ...|++++|+.++++.++.     |  .+....+++.|..+|...|++++|..++++..+.   -.++ .|.   +++.|
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  399 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRA  399 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3567777777777665541     1  1123456777777777777777777777665321   1111 222   66777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH-----CCCC-CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          156 ISCFGKQGQLELMENTLKEMVS-----RGFS-VD-SATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       156 i~~~~~~g~~~~a~~~~~~m~~-----~g~~-p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      ...|...|++++|+.++++..+     .|.. |+ ..+.+.+-.++...+.+++|+.++..+++
T Consensus       400 a~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          400 GLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777766543     1221 22 23344555666667777777777777765

>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=97.73  E-value=0.00073  Score=50.94  Aligned_cols=110  Identities=10%  Similarity=-0.173  Sum_probs=61.8

Q ss_pred             ChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc----cCCHHHHH
Q 040580           59 KPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR----IGCFNEII  134 (412)
Q Consensus        59 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~  134 (412)
                      ++++|++.|++..+.| .|+..    |...|...+.+++|.+.|+...+.|   +...+..|...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4556666666665555 22222    4444444455556666666666543   44555555555555    56666666


Q ss_pred             HHHHHHhhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHCC
Q 040580          135 SIIDQVSCRNADLLPEVYSRAISCFGK----QGQLELMENTLKEMVSRG  179 (412)
Q Consensus       135 ~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  179 (412)
                      +.|++..+.+   ++..+..|-..|..    .+++++|...|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666665543   24455555555555    566666666666666554

>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=97.71  E-value=0.0096  Score=56.47  Aligned_cols=174  Identities=6%  Similarity=-0.087  Sum_probs=129.4

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC----------hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHH
Q 040580           56 RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF----------VLEAQVVWEELLSSSFVLSVQVLSDLMDAYG  125 (412)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  125 (412)
                      .....++|++.++++.... +-+..+|+.--.++...++          ++++...++.+.+.. +-+..+|+.-.-++.
T Consensus        41 ~~~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           41 AGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  118 (567)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3344578899999998864 2245667766666666666          899999999999876 667888988888888


Q ss_pred             ccC--CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhc-----
Q 040580          126 RIG--CFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG-QLELMENTLKEMVSRGFSVDSATGNAFIIYYSRF-----  197 (412)
Q Consensus       126 ~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----  197 (412)
                      +.+  +++++++.++++.+.+ +-+..+|+.--..+.+.| .++++++.++++.+..+. +...|+.....+.+.     
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCC
T ss_pred             HcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccc
Confidence            888  7799999999998877 556778888777777888 889999999988876543 667777666665553     


Q ss_pred             ---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc
Q 040580          198 ---------GSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK  234 (412)
Q Consensus       198 ---------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  234 (412)
                               +.++++.+.+....... +-+...|+-+-..+.+.++
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                     45677888887777654 2356677777666666555

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.71  E-value=0.00017  Score=66.95  Aligned_cols=121  Identities=8%  Similarity=-0.123  Sum_probs=85.4

Q ss_pred             CChhHHHHHHHHHHhc---CCCC----CHHhHHHHHHHHHhcCChHHHHHHHHHHHh-----CC--CCcCHHHHHHHHHH
Q 040580           58 KKPHLAHQLVNTVKSE---GLLP----DNSTLCALMLCYANNGFVLEAQVVWEELLS-----SS--FVLSVQVLSDLMDA  123 (412)
Q Consensus        58 ~~~~~a~~~~~~m~~~---g~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~~--~~~~~~~~~~li~~  123 (412)
                      |++++|..++++..+.   -+.|    ...+++.|..+|...|++++|..++++.++     .|  .+-...+++.|...
T Consensus       323 g~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  402 (490)
T 3n71_A          323 GLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLT  402 (490)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            6778888887776542   1122    245688888888889999988888887764     22  22235678888899


Q ss_pred             HHccCCHHHHHHHHHHHhh---cCCCCC-H---HhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          124 YGRIGCFNEIISIIDQVSC---RNADLL-P---EVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~---~~~~~~-~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      |...|++++|+.++++..+   .-+.++ |   .+.+.+-.++...+.+++|+.++..+++.
T Consensus       403 ~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          403 NWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998888886643   112232 2   25667777788888899999999888763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.66  E-value=0.00021  Score=63.22  Aligned_cols=148  Identities=8%  Similarity=-0.002  Sum_probs=81.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ..+..+...+.+.|++++|...|+..++.  .|+...       +...++.+++...+.          ...|..+..++
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            34555666677778888888888877664  233321       222333333332221          13788899999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcccHHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTY-LKERKFFML  238 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~~~~a  238 (412)
                      .+.|++++|+..+++..+... .+...+..+..++...|++++|...|+...+... -+...+..+.... ...+..+++
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p-~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP-DDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999987532 2567888899999999999999999999876531 2344555555442 334566777


Q ss_pred             HHHHHHHhcC
Q 040580          239 GEFLRDVGLG  248 (412)
Q Consensus       239 ~~~~~~~~~~  248 (412)
                      .+.+..+-..
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            8888776433

>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=97.66  E-value=0.00089  Score=51.26  Aligned_cols=94  Identities=13%  Similarity=0.047  Sum_probs=46.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCC-c-----C-----HHHHHHHHHHHHccCCHHHHHHHHHHHhhc-----CCC
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFV-L-----S-----VQVLSDLMDAYGRIGCFNEIISIIDQVSCR-----NAD  146 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-----~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~  146 (412)
                      ......+.+.|++++|...|+..++.... |     +     ...|+.+..++.+.|++++|+..+++..+.     .+.
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            33444455556666666666655553211 0     1     225566666666666666666666555443     001


Q ss_pred             C-CHHhH----HHHHHHHHhcCChHHHHHHHHHHH
Q 040580          147 L-LPEVY----SRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus       147 ~-~~~~~----~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      | ++..|    ...-.++...|++++|+..|++..
T Consensus        95 pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           95 QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            2 12244    445555555555555555555543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.65  E-value=0.0007  Score=46.29  Aligned_cols=61  Identities=20%  Similarity=0.175  Sum_probs=28.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      .+..+...+...|++++|...|+...+.. +.+..++..+..++.+.|++++|.+.|++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444444444555555555555444432 22344444444555555555555555554443

>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=97.65  E-value=0.00078  Score=51.60  Aligned_cols=96  Identities=13%  Similarity=-0.125  Sum_probs=78.0

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcCCCC------CH-----HhHHHHHHHHHhcCChHHHHHHHHHHHhC------
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEGLLP------DN-----STLCALMLCYANNGFVLEAQVVWEELLSS------  108 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------  108 (412)
                      .+......+.+.|++++|+..|++..+.....      +.     ..|..+..++.+.|++++|+..++..++.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            45556667778899999999999988753210      22     38888999999999999999999999885      


Q ss_pred             -CCCcCHHHH----HHHHHHHHccCCHHHHHHHHHHHhh
Q 040580          109 -SFVLSVQVL----SDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus       109 -~~~~~~~~~----~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                       + +-+...|    .....++...|++++|+..|++..+
T Consensus        93 ~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           93 LN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             4 3456788    9999999999999999999998865

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.64  E-value=0.00028  Score=50.55  Aligned_cols=62  Identities=15%  Similarity=0.097  Sum_probs=30.2

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      ..+..+...+...|++++|...|+...+.. +.+...+..+..++.+.|++++|.+.|++..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            344444444555555555555555544432 33444455555555555555555555555443

>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=97.63  E-value=0.0094  Score=56.53  Aligned_cols=174  Identities=4%  Similarity=-0.098  Sum_probs=130.5

Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC----------HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC----------FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ  162 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  162 (412)
                      ..-++|.+.++.+.+.. +-+..+|+.--.++.+.|+          ++++++.++++.+.+ +-+..+|+.--..+.+.
T Consensus        43 ~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            34567899999999875 5567788887777777777          899999999998776 55667888888888888


Q ss_pred             C--ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-------
Q 040580          163 G--QLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFG-SLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE-------  232 (412)
Q Consensus       163 g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-------  232 (412)
                      |  +++++++.++++.+.... +...|+.-...+.+.| .++++.+.++.+.+.. +-+...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence            8  779999999999987543 7788888777888888 8899999998888765 33677777776666553       


Q ss_pred             -------ccHHHHHHHHHHHh-cCCCCcchHHHHHHHHHHhcCCChHH
Q 040580          233 -------RKFFMLGEFLRDVG-LGRKDLGNLLWNLLLLSYAGNFKMKS  272 (412)
Q Consensus       233 -------~~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~  272 (412)
                             +.++++.+.+.+.- ..+.  |..+|+.+-..+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~--~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPN--DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSS--CSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCC--CccHHHHHHHHHhcCCCccc
Confidence                   55677777776543 3333  34777777777777666433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.62  E-value=0.00055  Score=49.56  Aligned_cols=61  Identities=11%  Similarity=-0.160  Sum_probs=24.8

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      ...+..+...+...|++++|...|+...+.. +.+...|..+..++...|++++|...|++.
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3334444444444444444444444444332 223333444444444444444444444433

>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=97.61  E-value=0.0021  Score=48.32  Aligned_cols=110  Identities=5%  Similarity=-0.117  Sum_probs=52.1

Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh----cCChHHHH
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK----QGQLELME  169 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~  169 (412)
                      ++++|...|+...+.| .|+..    |...|...+.+++|.+.|++..+.+   ++..+..|-..|..    .+++++|+
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            3445555555555544 22222    4444444444555555555554432   23444444444444    45555555


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 040580          170 NTLKEMVSRGFSVDSATGNAFIIYYSR----FGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       170 ~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  214 (412)
                      ..|++..+.|   +...+..|-..|..    .++.++|...|+...+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555554443   23334444444444    455555555555555444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.54  E-value=0.00085  Score=48.52  Aligned_cols=80  Identities=9%  Similarity=0.035  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 040580           97 EAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus        97 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  176 (412)
                      .+...|+...+.. +.+...+..+...+.+.|++++|.+.|++..+.+ +.++..|..+...+...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4566677776654 4567778888888888888888888888877654 4456677778888888888888888888776


Q ss_pred             HC
Q 040580          177 SR  178 (412)
Q Consensus       177 ~~  178 (412)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.52  E-value=0.00051  Score=49.10  Aligned_cols=65  Identities=14%  Similarity=0.117  Sum_probs=49.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          113 SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      +...+..+...+.+.|++++|.+.|++..+.. +.++..|..+..++.+.|++++|+..+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            45667777788888888888888888877654 456667777888888888888888888887764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.48  E-value=0.0013  Score=44.89  Aligned_cols=83  Identities=12%  Similarity=-0.010  Sum_probs=67.3

Q ss_pred             ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 040580           43 GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMD  122 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  122 (412)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            34567788888999999999999999998764 3467888899999999999999999999998865 456777777776


Q ss_pred             HHHcc
Q 040580          123 AYGRI  127 (412)
Q Consensus       123 ~~~~~  127 (412)
                      ++.+.
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66543

>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=97.43  E-value=0.00053  Score=52.41  Aligned_cols=96  Identities=10%  Similarity=0.012  Sum_probs=52.1

Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCC----------HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGC----------FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ  162 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  162 (412)
                      +.+++|...++...+.. +.+...|+.+..++.+.++          +++|+..|++..+.+ +-.+.+|..+-.+|...
T Consensus        16 ~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHh
Confidence            34455555555555443 3345555555555554443          346666666665544 33444666666666554


Q ss_pred             -----------CChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          163 -----------GQLELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       163 -----------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                                 |++++|+..|++..+.  .|+...|...+.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence                       3677777777776663  566555544444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.23  E-value=0.0023  Score=44.93  Aligned_cols=61  Identities=5%  Similarity=-0.034  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      ...+..+..+|.+.|++++|.+.|++..+.+ +-++..|..+..+|...|++++|...|++.
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3344444444444444444444444444332 222334444444444444444444444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.14  E-value=0.0026  Score=44.63  Aligned_cols=64  Identities=22%  Similarity=0.118  Sum_probs=41.7

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      +...+..+...+.+.|++++|...|+..++.+ +.+...|..+..+|.+.|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45556666666667777777777777666654 33455666677777777777777776666543

>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=97.07  E-value=0.0014  Score=50.05  Aligned_cols=96  Identities=14%  Similarity=0.018  Sum_probs=57.0

Q ss_pred             CChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC----------hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc
Q 040580           58 KKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF----------VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI  127 (412)
Q Consensus        58 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  127 (412)
                      +.+++|.+.++...+.. +-+...|..+..++...++          +++|+..|++.++.+ +-+..+|..+..+|.+.
T Consensus        16 ~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHh
Confidence            34555666666655543 2255555555555555544          347777777777654 44566777777777665


Q ss_pred             C-----------CHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580          128 G-----------CFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus       128 ~-----------~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      |           ++++|.+.|++..+.+  |+...|...+.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~--P~~~~y~~al~  132 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSLE  132 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            3           7788888888776643  44344444433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.04  E-value=0.048  Score=54.16  Aligned_cols=152  Identities=8%  Similarity=0.034  Sum_probs=92.9

Q ss_pred             HHhcCCChhHHHH-HHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHH
Q 040580           53 DLGRKKKPHLAHQ-LVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFN  131 (412)
Q Consensus        53 ~~~~~~~~~~a~~-~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  131 (412)
                      .....+++++|.+ ++..     + |+......++..+.+.|.++.|.++.+.       |.     .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHH
Confidence            3345677888766 4421     1 1122336777778888888888766532       11     1133455678888


Q ss_pred             HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040580          132 EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLK  211 (412)
Q Consensus       132 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  211 (412)
                      .|.++.+.+      .++..|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+....+-+...
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            888876543      3456888888888899999998888887753         4445555555777776666555555


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcccHHHHHHHHH
Q 040580          212 RSRHLIDKEGIRAVSFTYLKERKFFMLGEFLR  243 (412)
Q Consensus       212 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  243 (412)
                      ..|      -++....+|.+.|++++|.+++.
T Consensus       735 ~~~------~~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          735 TTG------KFNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             HTT------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HcC------chHHHHHHHHHcCCHHHHHHHHH
Confidence            443      12333334445555555555444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.95  E-value=0.016  Score=57.52  Aligned_cols=151  Identities=11%  Similarity=-0.053  Sum_probs=102.2

Q ss_pred             CCCChHHHHH-HHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           25 HPKNGDLARK-IIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWE  103 (412)
Q Consensus        25 ~~~~~~~A~~-~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  103 (412)
                      ..+++++|.+ ++..++  +......++..+.+.|.++.|.++.+.-.        .    -.......|+++.|.++.+
T Consensus       611 ~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~~~--------~----~f~~~l~~~~~~~A~~~~~  676 (814)
T 3mkq_A          611 LRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPDQD--------Q----KFELALKVGQLTLARDLLT  676 (814)
T ss_dssp             HTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCCHH--------H----HHHHHHHHTCHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCCcc--------h----heehhhhcCCHHHHHHHHH
Confidence            3566777766 543333  02233778888888999999987763221        1    1334567899999998864


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 040580          104 ELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVD  183 (412)
Q Consensus       104 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  183 (412)
                      .+      .+...|..+...+.+.++++.|.+.|.++.+         |..+...+...|+.+....+-+.....|-   
T Consensus       677 ~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~---  738 (814)
T 3mkq_A          677 DE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK---  738 (814)
T ss_dssp             TC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC---
T ss_pred             hh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc---
Confidence            33      4678999999999999999999999998843         45556666667777776666655555432   


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          184 SATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       184 ~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                         ++....++.+.|++++|.+++.++
T Consensus       739 ---~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          739 ---FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             ---HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             ---hHHHHHHHHHcCCHHHHHHHHHHc
Confidence               344444566677777777776554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.71  E-value=0.01  Score=41.13  Aligned_cols=55  Identities=16%  Similarity=0.186  Sum_probs=27.8

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCcCHH-HHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 040580           88 CYANNGFVLEAQVVWEELLSSSFVLSVQ-VLSDLMDAYGRIGCFNEIISIIDQVSCR  143 (412)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~  143 (412)
                      .+.+.|++++|...|+...+.. +.+.. .+..+..++...|++++|.+.|++..+.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3444555555555555555442 23334 5555555555555555555555555443

>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=96.66  E-value=0.014  Score=53.24  Aligned_cols=84  Identities=8%  Similarity=-0.025  Sum_probs=48.3

Q ss_pred             CChHHHHHHHHHHHhC-----C--CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhc---CCC-CCHH---hHHHHHHH
Q 040580           93 GFVLEAQVVWEELLSS-----S--FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCR---NAD-LLPE---VYSRAISC  158 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~-----~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~-~~~~---~~~~li~~  158 (412)
                      |++++|+.++++.++.     |  .+....+++.|..+|...|++++|+.++++..+.   -.+ -.|+   +++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            4566666666655431     1  1112356667777777777777777766655321   111 1222   66677777


Q ss_pred             HHhcCChHHHHHHHHHHH
Q 040580          159 FGKQGQLELMENTLKEMV  176 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~  176 (412)
                      |...|++++|+.++++..
T Consensus       392 ~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHH
Confidence            777777777777776654

>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=96.66  E-value=0.042  Score=48.28  Aligned_cols=142  Identities=12%  Similarity=-0.013  Sum_probs=81.2

Q ss_pred             CCCHHhHHHHHHHHHh--cC---ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc---cC--CHHHH---HHHHHHHhh
Q 040580           76 LPDNSTLCALMLCYAN--NG---FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR---IG--CFNEI---ISIIDQVSC  142 (412)
Q Consensus        76 ~p~~~~~~~ll~~~~~--~~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~---~~--~~~~a---~~~~~~m~~  142 (412)
                      +.+...|...+++...  .+   +..+|..+|++.++.. |-....|..+.-+|.-   .+  .....   .+.++....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            4566677776655432  22   3467778888887764 3334445444433321   00  10111   111221111


Q ss_pred             -cCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 040580          143 -RNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEG  221 (412)
Q Consensus       143 -~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  221 (412)
                       ...+.++.+|..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+++....+  |...+
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~~~t  345 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGANT  345 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcCh
Confidence             1124455577776666666688888888888877764  666666666777777888888888887776653  45444


Q ss_pred             H
Q 040580          222 I  222 (412)
Q Consensus       222 ~  222 (412)
                      |
T Consensus       346 ~  346 (372)
T 3ly7_A          346 L  346 (372)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.65  E-value=0.0081  Score=54.70  Aligned_cols=85  Identities=9%  Similarity=-0.000  Sum_probs=65.7

Q ss_pred             CCHHHHHHHHHHHhhc---CCCCC-H---HhHHHHHHHHHhcCChHHHHHHHHHHHHC-----C-CCCC-hHHHHHHHHH
Q 040580          128 GCFNEIISIIDQVSCR---NADLL-P---EVYSRAISCFGKQGQLELMENTLKEMVSR-----G-FSVD-SATGNAFIIY  193 (412)
Q Consensus       128 ~~~~~a~~~~~~m~~~---~~~~~-~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~li~~  193 (412)
                      |++++|+.++++..+.   -+.++ |   .+++.|...|...|++++|+.++++..+-     | -.|+ ..+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            6888888888876542   22232 3   38899999999999999999999987542     2 2343 3678899999


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 040580          194 YSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       194 ~~~~g~~~~a~~~~~~~~~  212 (412)
                      |...|++++|+.++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            9999999999999988765

>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=96.57  E-value=0.018  Score=52.43  Aligned_cols=86  Identities=15%  Similarity=0.038  Sum_probs=48.4

Q ss_pred             hcCChHHHHHHHHHHHhCC---CCc----CHHHHHHHHHHHHccCCHHHHHHHHHHHhhc---CC-CCCHH---hHHHHH
Q 040580           91 NNGFVLEAQVVWEELLSSS---FVL----SVQVLSDLMDAYGRIGCFNEIISIIDQVSCR---NA-DLLPE---VYSRAI  156 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~---~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~-~~~~~---~~~~li  156 (412)
                      +.|++++|+.++++.++..   +.|    ...+++.|..+|...|++++|+.++++....   -. +-.|.   +++.|.
T Consensus       299 ~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa  378 (429)
T 3qwp_A          299 AHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVG  378 (429)
T ss_dssp             HTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHH
Confidence            4556666666666665421   111    2356666666666666666666666655321   11 11222   566666


Q ss_pred             HHHHhcCChHHHHHHHHHHH
Q 040580          157 SCFGKQGQLELMENTLKEMV  176 (412)
Q Consensus       157 ~~~~~~g~~~~a~~~~~~m~  176 (412)
                      ..|...|++++|+.++++..
T Consensus       379 ~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          379 KLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHH
Confidence            66777777777766666543

>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=96.55  E-value=0.019  Score=52.31  Aligned_cols=92  Identities=8%  Similarity=-0.067  Sum_probs=70.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcC---CCCC-H---HhHHHHHHHHHhcCChHHHHHHHHHHHHC-----C-CCCC-hHH
Q 040580          121 MDAYGRIGCFNEIISIIDQVSCRN---ADLL-P---EVYSRAISCFGKQGQLELMENTLKEMVSR-----G-FSVD-SAT  186 (412)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~m~~~~---~~~~-~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~~  186 (412)
                      +..+.+.|++++|+.++++..+..   +.++ |   .+++.+...|...|++++|+.++++...-     | -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            444567789999999999886531   2222 2   38899999999999999999999987542     2 2333 367


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          187 GNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       187 ~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      ++.|...|...|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88899999999999999999988764

>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=96.53  E-value=0.056  Score=47.47  Aligned_cols=72  Identities=7%  Similarity=-0.039  Sum_probs=53.6

Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHH
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYG  328 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  328 (412)
                      +..+|..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+++...  +.|...||.
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~  347 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLY  347 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHH
Confidence            34777777666666788888888888888764  7777777777777888888888888877766  456666654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.17  Score=39.14  Aligned_cols=96  Identities=13%  Similarity=0.055  Sum_probs=43.3

Q ss_pred             cCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHH
Q 040580           56 RKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIIS  135 (412)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  135 (412)
                      +.|+++.|.++.+++      -+...|..|.....+.|+++-|++.|.....         +..+.-.|.-.|+.+...+
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            345555555554443      1344555555555555555555555544432         2333333444444444443


Q ss_pred             HHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 040580          136 IIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTL  172 (412)
Q Consensus       136 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  172 (412)
                      +-+....+|      -++.....+.-.|+++++.++|
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL  112 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIF  112 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHH
Confidence            333333332      2344444444445555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.16  E-value=0.04  Score=38.01  Aligned_cols=58  Identities=9%  Similarity=0.120  Sum_probs=40.3

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          120 LMDAYGRIGCFNEIISIIDQVSCRNADLLPE-VYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      ....+.+.|++++|.+.|++..+.. +.++. .+..+...+...|++++|+..|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3445666777777777777776654 44556 6777777777777777777777777664

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.16  E-value=0.088  Score=39.70  Aligned_cols=80  Identities=6%  Similarity=-0.032  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC---CHHHHHHHHHHHhhcCCCC--CHHhHHHHHHHHHhcCChHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG---CFNEIISIIDQVSCRNADL--LPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      ..+.+-|.+..+.| +++..+...+.-++++++   +++++..+|++..+.+ .|  ..+.+-.+.-++.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            33444455544444 355555555566666655   4446666666665543 12  23344444455566666666666


Q ss_pred             HHHHHHH
Q 040580          171 TLKEMVS  177 (412)
Q Consensus       171 ~~~~m~~  177 (412)
                      .++.+.+
T Consensus        93 y~~~lL~   99 (152)
T 1pc2_A           93 YVRGLLQ   99 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6666665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.13  E-value=0.055  Score=37.17  Aligned_cols=64  Identities=16%  Similarity=-0.048  Sum_probs=29.9

Q ss_pred             CHHhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           78 DNSTLCALMLCYANNGF---VLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      |+..+..+..++...++   .++|..++++.++.+ +-+......+...+.+.|++++|...|+++.+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444444444433222   345555555555443 33444444455555555555555555555544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.99  E-value=0.11  Score=35.69  Aligned_cols=67  Identities=7%  Similarity=-0.055  Sum_probs=44.8

Q ss_pred             CcCHHHHHHHHHHHHccCC---HHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          111 VLSVQVLSDLMDAYGRIGC---FNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      +.|...+..+..++...++   .++|..+|++..+.+ +-++.....+-..+.+.|++++|+..|+++.+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4556666666666654443   577777777776655 445556666677777777777777777777765

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.71  E-value=0.16  Score=35.56  Aligned_cols=61  Identities=15%  Similarity=0.056  Sum_probs=26.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC------CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSS------FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      .+..|...+.+.++++.|...|+...+.-      -.+...++..|..++.+.|+++.|...+++..
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al   73 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLL   73 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33344444444444444444444443310      01223444444444444444444444444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.62  E-value=0.57  Score=36.28  Aligned_cols=23  Identities=26%  Similarity=0.241  Sum_probs=9.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLK  173 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~  173 (412)
                      .|..|-......|+++-|.+.|.
T Consensus        36 ~Wk~Lg~~AL~~gn~~lAe~cy~   58 (177)
T 3mkq_B           36 TWERLIQEALAQGNASLAEMIYQ   58 (177)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHH
Confidence            34444444444444444444333

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.51  E-value=0.48  Score=34.68  Aligned_cols=46  Identities=7%  Similarity=-0.075  Sum_probs=21.3

Q ss_pred             CCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           57 KKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEEL  105 (412)
Q Consensus        57 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m  105 (412)
                      .|.+++..++..+....   .+..-||-+|.-....-+-+-..++++.+
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~I   65 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKI   65 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHH
Confidence            45556666666555442   13444444444444444444444444333

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.51  E-value=0.2  Score=37.78  Aligned_cols=83  Identities=8%  Similarity=0.017  Sum_probs=39.0

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcc---cHHHHHHHHHHHhcCC-CCcchHHHHHHHHHHhcCCChHHHHHHHH
Q 040580          203 METAYGRLKRSRHLIDKEGIRAVSFTYLKER---KFFMLGEFLRDVGLGR-KDLGNLLWNLLLLSYAGNFKMKSLQREFM  278 (412)
Q Consensus       203 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~  278 (412)
                      +++-|.+..+.|. ++..+...+..++++++   +++++..++++.-... +.-+...+-.+.-+|.+.|++++|.+.++
T Consensus        17 ~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~   95 (152)
T 1pc2_A           17 FEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVR   95 (152)
T ss_dssp             HHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHH
T ss_pred             HHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            3344443333332 34444444444444444   3344444444432222 10112344445555666666666666666


Q ss_pred             HHHHcCCCCc
Q 040580          279 RMSEAGFHPD  288 (412)
Q Consensus       279 ~m~~~~~~p~  288 (412)
                      .+.+.  .|+
T Consensus        96 ~lL~i--eP~  103 (152)
T 1pc2_A           96 GLLQT--EPQ  103 (152)
T ss_dssp             HHHHH--CTT
T ss_pred             HHHhc--CCC
Confidence            66654  454

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.47  E-value=0.49  Score=34.59  Aligned_cols=147  Identities=10%  Similarity=-0.001  Sum_probs=88.1

Q ss_pred             HHHHHHH--HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHH
Q 040580           82 LCALMLC--YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCF  159 (412)
Q Consensus        82 ~~~ll~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  159 (412)
                      ...|+.+  ..-.|.+++..++..+..+   +.+..-||.+|.-....-+-+-..++++.+-.. +..            
T Consensus         8 ~kkLmeAK~~ildG~v~qGveii~k~~~---ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGki-FDi------------   71 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDL------------   71 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCG------------
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHcC---CCCccccceeeeecchhhchhHHHHHHHHHhhh-cCc------------
Confidence            3344443  3456888888888888876   345666777777777777777777777766321 111            


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHH
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLG  239 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  239 (412)
                      ...|++..+...+-.+-     .+...+...+......|+.++..+++..+.. +.+|++...-.+..||.+.|+..++.
T Consensus        72 s~C~NlKrVi~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~  145 (172)
T 1wy6_A           72 DKCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDAT  145 (172)
T ss_dssp             GGCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHH
Confidence            12233333333332221     2444556666667777777777777766543 33566677777777777777777777


Q ss_pred             HHHHHHhcCCC
Q 040580          240 EFLRDVGLGRK  250 (412)
Q Consensus       240 ~~~~~~~~~~~  250 (412)
                      +++.+.-..+.
T Consensus       146 eLl~~AC~kG~  156 (172)
T 1wy6_A          146 TLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHhhh
Confidence            77776555444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.30  E-value=0.17  Score=35.46  Aligned_cols=66  Identities=15%  Similarity=0.033  Sum_probs=52.8

Q ss_pred             hhhHHHHHHHHhcCCChhHHHHHHHHHHhcC------CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 040580           44 FVDCASLVEDLGRKKKPHLAHQLVNTVKSEG------LLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSS  109 (412)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  109 (412)
                      ..-+-.+...+.+.|+++.|...|+...+.-      -.+....+..|..++.+.|+++.|...++...+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            3445677888889999999999998876531      13456788899999999999999999999998863

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.93  E-value=2.1  Score=38.94  Aligned_cols=50  Identities=10%  Similarity=-0.002  Sum_probs=28.9

Q ss_pred             CChhHHHHHHHHHHhc-----CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 040580           58 KKPHLAHQLVNTVKSE-----GLLPDNSTLCALMLCYANNGFVLEAQVVWEELLS  107 (412)
Q Consensus        58 ~~~~~a~~~~~~m~~~-----g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  107 (412)
                      |+++.|++.+-.+.+.     +..-+......++..|...++++...+.+..+.+
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lsk   84 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSK   84 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            5566666665444321     2233455566667777777777766666655543

>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=94.77  E-value=0.83  Score=34.14  Aligned_cols=30  Identities=17%  Similarity=0.070  Sum_probs=17.1

Q ss_pred             ChhhHHHHHHHHhcCCCh------hHHHHHHHHHHh
Q 040580           43 GFVDCASLVEDLGRKKKP------HLAHQLVNTVKS   72 (412)
Q Consensus        43 ~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~   72 (412)
                      |..+|-..+...-+.|++      ++..++|++...
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia   47 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE   47 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH
Confidence            555555555555555665      555555555554

>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=94.67  E-value=0.37  Score=40.63  Aligned_cols=93  Identities=11%  Similarity=0.012  Sum_probs=68.2

Q ss_pred             hHHHHHHHHHHHhCCCCcC---HHHHHHHHHHHHcc-----CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhc-CCh
Q 040580           95 VLEAQVVWEELLSSSFVLS---VQVLSDLMDAYGRI-----GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQ-GQL  165 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g~~  165 (412)
                      ...|...+++.++.  .|+   ...|..|...|.+.     |+.++|.+.|++..+.+-.-++.++......+++. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45667777777775  354   56788888888884     89999999999887765322467788888888874 889


Q ss_pred             HHHHHHHHHHHHCCCC--CChHHHHH
Q 040580          166 ELMENTLKEMVSRGFS--VDSATGNA  189 (412)
Q Consensus       166 ~~a~~~~~~m~~~g~~--p~~~~~~~  189 (412)
                      +++.+.+++..+....  |+....+.
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            9999999988887665  55444433

>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=94.53  E-value=0.37  Score=35.99  Aligned_cols=35  Identities=9%  Similarity=0.086  Sum_probs=20.5

Q ss_pred             CHHhHHHHHHHHHhcCCh------HHHHHHHHHHHhCCCCcC
Q 040580           78 DNSTLCALMLCYANNGFV------LEAQVVWEELLSSSFVLS  113 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~m~~~~~~~~  113 (412)
                      |..+|-..+....+.|++      ++..++|++.... ++|+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~   52 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPD   52 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGG
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCcc
Confidence            555666666666656666      6666666666553 3443

>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=93.98  E-value=0.62  Score=39.30  Aligned_cols=85  Identities=15%  Similarity=0.091  Sum_probs=69.1

Q ss_pred             hhHHHHHHHHHHhcCCCCC---HHhHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc-CCH
Q 040580           60 PHLAHQLVNTVKSEGLLPD---NSTLCALMLCYANN-----GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI-GCF  130 (412)
Q Consensus        60 ~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~~~  130 (412)
                      ...|..++++..+.  .|+   ...|..|...|.+.     |+.++|.+.|++.++.+..-+..++......+++. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            46677777777775  566   66899999999995     99999999999999965222478888899999885 999


Q ss_pred             HHHHHHHHHHhhcCCC
Q 040580          131 NEIISIIDQVSCRNAD  146 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~  146 (412)
                      +.+.+.+++.......
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            9999999999876544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.62  E-value=0.65  Score=33.64  Aligned_cols=80  Identities=6%  Similarity=-0.019  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHH---HHHHHHHHhhcCCCC--CHHhHHHHHHHHHhcCChHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNE---IISIIDQVSCRNADL--LPEVYSRAISCFGKQGQLELMEN  170 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~  170 (412)
                      ..+.+-|......| .|+..+--.+.-++.++.+...   +..+++++...+ .|  ..+..-.|.-++.+.|++++|.+
T Consensus        18 ~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           18 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            33344444444333 2444444445555555554443   555555554332 11  11133334445555555555555


Q ss_pred             HHHHHHH
Q 040580          171 TLKEMVS  177 (412)
Q Consensus       171 ~~~~m~~  177 (412)
                      .++.+.+
T Consensus        96 ~~~~lL~  102 (126)
T 1nzn_A           96 YVRGLLQ  102 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555555

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.29  E-value=2.4  Score=43.85  Aligned_cols=211  Identities=10%  Similarity=-0.010  Sum_probs=133.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC----CC--------------
Q 040580          189 AFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG----RK--------------  250 (412)
Q Consensus       189 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~--------------  250 (412)
                      .++..+...+..+.+.++....     +.++...-.+..+|...|++++|.+.|.+....    ..              
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            3555566666666666554332     234554455666788899999999999874111    00              


Q ss_pred             ----CcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCC-C-CcH--hHHHHHHHHHHccCChhHHHHHHHHHHhCCCCC
Q 040580          251 ----DLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGF-H-PDL--TTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGP  322 (412)
Q Consensus       251 ----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~-p~~--~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p  322 (412)
                          ..-..-|..++..+-+.|.++.+.++-+...+..- . ++.  ..|..+++++...|++++|...+-.+.+...+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence                00123477888889999999999988776664321 1 111  25788999999999999999999888765554 


Q ss_pred             CHhhHHHHHHHHHhccccch------------HHHHHHhc-cC--CCCCCcccHHHHHHHHhc-CCcccHHHHHHHhcc-
Q 040580          323 DLVTYGCVVDAYLDKRLGRN------------LDFGLSKM-NL--DDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFKR-  385 (412)
Q Consensus       323 ~~~~~~~li~~~~~~~~~~~------------a~~~~~~m-~~--~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~~-  385 (412)
                       ...+..||..+|..+..+.            +.+++..- +.  ........|..|..-+.. |++..|.+++.+-.. 
T Consensus       971 -~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence             5677788888887655443            34444332 11  111112235666665544 999999888865311 


Q ss_pred             --------------CchHHHHHHHHHHHHcCccccc
Q 040580          386 --------------QRKWTYRKLIAVYLKKQLRRNQ  407 (412)
Q Consensus       386 --------------~~~~~~~~l~~~~~~~g~~~~a  407 (412)
                                    +-...|...++++.-.. .+.|
T Consensus      1050 L~~~~~~~~~~~~~~q~~~yL~~INaLslvd-~~~a 1084 (1139)
T 4fhn_B         1050 YISTTELIGKKERTFIIEHYLIVLNTLELLP-KEDT 1084 (1139)
T ss_dssp             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHSC-SSCC
T ss_pred             hhhccccccchhHHHHHHHHHHHHHHHhcCC-hhhC
Confidence                          12456888888887763 3444

>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=92.83  E-value=0.59  Score=41.79  Aligned_cols=127  Identities=11%  Similarity=-0.042  Sum_probs=70.6

Q ss_pred             CHHhHHHHHHHHH---hcCChHHHHHHHHHHHhC--C-CCcCHHHHHHHHHHHHccCCHH-HHHHHHHHHhhcCCCCCHH
Q 040580           78 DNSTLCALMLCYA---NNGFVLEAQVVWEELLSS--S-FVLSVQVLSDLMDAYGRIGCFN-EIISIIDQVSCRNADLLPE  150 (412)
Q Consensus        78 ~~~~~~~ll~~~~---~~~~~~~a~~~~~~m~~~--~-~~~~~~~~~~li~~~~~~~~~~-~a~~~~~~m~~~~~~~~~~  150 (412)
                      |...|..++....   ..|+.+.+...++.....  | +-++..           ...+- ....-+++...       .
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~-----------~~~w~~~~r~~l~~~~~-------~  172 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR-----------DFQFVEPFATALVEDKV-------L  172 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT-----------TSTTHHHHHHHHHHHHH-------H
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCC-----------chhHHHHHHHHHHHHHH-------H
Confidence            4445555554432   357888888888887763  3 111110           01111 11112222211       2


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHH
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKR-----SRHLIDKEGIR  223 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~  223 (412)
                      +...++..+...|++++++..+..+.... +-+...+..+|.++.+.|+..+|.+.|+.+.+     .|+.|++.+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            34455666667777777777777666542 12556677777777777777777777766543     37777766543

>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=92.77  E-value=0.68  Score=31.75  Aligned_cols=40  Identities=18%  Similarity=0.344  Sum_probs=17.1

Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580          102 WEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus       102 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      ++.+...++.|+..+..+.+++|-+.+++..|.++|+-++
T Consensus        33 lN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           33 MNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3333334444444444444444444444444444444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.64  E-value=1.4  Score=31.95  Aligned_cols=25  Identities=4%  Similarity=-0.077  Sum_probs=14.6

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHc
Q 040580          259 LLLLSYAGNFKMKSLQREFMRMSEA  283 (412)
Q Consensus       259 ~li~~~~~~g~~~~a~~~~~~m~~~  283 (412)
                      .|.-++.+.|++++|.+.++.+.+.
T Consensus        79 ~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           79 YLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3445566666666666666666544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.55  E-value=6  Score=35.98  Aligned_cols=185  Identities=10%  Similarity=0.035  Sum_probs=116.5

Q ss_pred             CCChHHHHHHHHHhhcc---------ChhhHHHHHHHHhcCCChhHHHHHHHHHHh-cCCCCCHHhHHHHHHHH----Hh
Q 040580           26 PKNGDLARKIIRYRKQE---------GFVDCASLVEDLGRKKKPHLAHQLVNTVKS-EGLLPDNSTLCALMLCY----AN   91 (412)
Q Consensus        26 ~~~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~~~~~ll~~~----~~   91 (412)
                      .|+++.|...+-.+.+.         .......++..|...|+++...+.+..+.. +|..+.  .-..+++.+    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhc
Confidence            36788888777555431         344577899999999999999888876654 343322  223333333    33


Q ss_pred             cCChHHH--HHHHHHHHh--CC-CCc---CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCH-----HhHHHHHHH
Q 040580           92 NGFVLEA--QVVWEELLS--SS-FVL---SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLP-----EVYSRAISC  158 (412)
Q Consensus        92 ~~~~~~a--~~~~~~m~~--~~-~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-----~~~~~li~~  158 (412)
                      ....+..  ..+.+.+..  .| +-.   .......|...+...|++.+|.+++.++...-...+.     ..+..-++.
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            3333321  122221111  11 111   2345567888899999999999999988643222221     266777888


Q ss_pred             HHhcCChHHHHHHHHHHHH----CCCCCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          159 FGKQGQLELMENTLKEMVS----RGFSVDS--ATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       159 ~~~~g~~~~a~~~~~~m~~----~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      |...+++.+|..++++...    ....|+.  ..+...+..+...+++.+|.+.|.++..
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            9999999999999988643    2222322  3456677777888999888888777654

>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=92.41  E-value=0.45  Score=32.62  Aligned_cols=46  Identities=15%  Similarity=0.135  Sum_probs=22.9

Q ss_pred             hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          270 MKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       270 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                      .-++.+-++.+....+.|+.......+.||.+.+++..|.++++-.
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~i   71 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVV   71 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3344444444444445555555555555555555555555555444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.96  E-value=1.1  Score=43.58  Aligned_cols=125  Identities=11%  Similarity=0.072  Sum_probs=80.0

Q ss_pred             HHHHHHHhcCCC-hhHHHHHHHHHHhcCCCCCHHhH--HHHHHHHHhcCC-hHHHHHHHHHHHhC------CCCc-C---
Q 040580           48 ASLVEDLGRKKK-PHLAHQLVNTVKSEGLLPDNSTL--CALMLCYANNGF-VLEAQVVWEELLSS------SFVL-S---  113 (412)
Q Consensus        48 ~~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~--~~ll~~~~~~~~-~~~a~~~~~~m~~~------~~~~-~---  113 (412)
                      ..+++.+...++ .+.|..+|+++....  |...++  ..++..+.+.++ --+|.++..+..+.      ..++ +   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            455666666666 578999999998863  433332  233333333332 22344444443321      1111 1   


Q ss_pred             -------HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          114 -------VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       114 -------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                             ....+.=.+.|...|+++.|+++-++..... +.+-.+|..|..+|...|+++.|+-.++.+
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                   1123333455677899999999999987653 445569999999999999999999999876

>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=91.88  E-value=1.3  Score=39.48  Aligned_cols=76  Identities=7%  Similarity=0.051  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCChHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS-----RGFSVDSATGNAF  190 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~l  190 (412)
                      +...++..+...|++++|...++.+.... +.+...|..+|.++.+.|+..+|++.|++..+     -|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            34567778888899999998888887665 66777899999999999999999999988754     4888887665433


Q ss_pred             HH
Q 040580          191 II  192 (412)
Q Consensus       191 i~  192 (412)
                      -.
T Consensus       252 ~~  253 (388)
T 2ff4_A          252 ER  253 (388)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=90.19  E-value=1.4  Score=31.99  Aligned_cols=64  Identities=14%  Similarity=0.115  Sum_probs=43.4

Q ss_pred             ChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHH
Q 040580          304 MFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEA  367 (412)
Q Consensus       304 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~  367 (412)
                      +..+..+-++.+....+-|++....+.+++|.|..++..|.++++-++.+..+....|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHHH
Confidence            4455666666666677777777777777777777777777777777755554455556665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.43  E-value=2.6  Score=41.03  Aligned_cols=52  Identities=10%  Similarity=-0.087  Sum_probs=35.2

Q ss_pred             HHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHH
Q 040580          228 TYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRM  280 (412)
Q Consensus       228 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  280 (412)
                      .+...|+++-|.++-++.....+. +-.+|..|..+|...|+++.|+-.+..+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            345567777777777765443333 3477778888888888888877777665

>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=89.31  E-value=4.9  Score=29.26  Aligned_cols=60  Identities=8%  Similarity=0.037  Sum_probs=34.1

Q ss_pred             HHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          132 EIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       132 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                      +..+-++.+-..++.|+|.+....+.+|-+.+++.-|.++|+-.+.+ +.+....|..++.
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            34455555555566666666666666666666666666666665543 2223344554443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.19  E-value=23  Score=36.72  Aligned_cols=27  Identities=4%  Similarity=-0.193  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580          114 VQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      ...--.+..++...|++++|.+.|++.
T Consensus       842 ~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          842 PIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            333344556666677777777777654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=88.97  E-value=0.00023  Score=64.00  Aligned_cols=238  Identities=15%  Similarity=0.112  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYS  195 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  195 (412)
                      +|..|..+..+.+++.+|.+.|-+.      -||..|..+|.+..+.|.+++-+..+.-.++..-  +...=+.|+-+|+
T Consensus        56 VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayA  127 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALA  127 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHH
T ss_pred             HHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHH
Confidence            4555555555555555554433221      2234555566666666666655555544443322  2223334555666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH--------------------hcCCCCcchH
Q 040580          196 RFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDV--------------------GLGRKDLGNL  255 (412)
Q Consensus       196 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~--------------------~~~~~~~~~~  255 (412)
                      +.+++.+.++++.       .|+..-...+.+-|...|.++.|.-+|..+                    ....+.-++.
T Consensus       128 k~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          128 KTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             TSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            6655544333221       133333344444444444444444444332                    1111222447


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCC-CCHhhHHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVG-PDLVTYGCVVDAY  334 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~  334 (412)
                      ||-.+-.+|...+.+.-|...--.+.-   .||  -...++.-|.+.|.+++.+.+++.-.  |++ .-.-+|+-|.-.|
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEagl--glErAHmGmFTELaILY  273 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAAL--GLERAHMGMFTELAILY  273 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHT--TSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHh--CCCchhHHHHHHHHHHH
Confidence            888888888888888777554434431   222  23346667888899988888887654  332 3566777777777


Q ss_pred             HhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc-CCcccHHHHHH
Q 040580          335 LDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFL  381 (412)
Q Consensus       335 ~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~  381 (412)
                      +|- ++++..+.++.....+  |.   ..+|++|.+ --|.++.-++.
T Consensus       274 sKY-~PeKlmEHlklf~sri--Ni---pKviracE~ahLW~ElvfLY~  315 (624)
T 3lvg_A          274 SKF-KPQKMREHLELFWSRV--NI---PKVLRAAEQAHLWAELVFLYD  315 (624)
T ss_dssp             HSS-CTTHHHHHHTTSSSSS--CC---TTTHHHHTTTTCHHHHHHHHH
T ss_pred             Hhc-CHHHHHHHHHHHHHhc--cH---HHHHHHHHHHhhHHHHHHHHh
Confidence            764 6677777777762222  11   124666665 55555544443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=88.96  E-value=0.0023  Score=57.62  Aligned_cols=243  Identities=12%  Similarity=0.036  Sum_probs=153.0

Q ss_pred             hhccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc
Q 040580           13 KFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN   92 (412)
Q Consensus        13 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~   92 (412)
                      +.-|..|..++.+.+++.+|+.-|  ++..|+..|..+|.+..+.|++++-+..+...++..  -++..=+.|+.+|++.
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKT  129 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTS
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhh
Confidence            345677778888888888877654  455677788888999889999988888886555442  2444456788889988


Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC--------------------CCCCHHhH
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN--------------------ADLLPEVY  152 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------------~~~~~~~~  152 (412)
                      ++..+.+++.       -.||+.-...+.+-|...|.++.|.-+|..+....                    ---++.||
T Consensus       130 ~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktW  202 (624)
T 3lvg_A          130 NRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTW  202 (624)
T ss_dssp             CSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSH
T ss_pred             CcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Confidence            8866644433       13565556667777777777777766665543211                    11234478


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE  232 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  232 (412)
                      --+-.+|...+++.-|.-.--.+.-   .||  ....++..|-+.|.+++...+++.-... -+....+|+-|.-.|+|-
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF  276 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc
Confidence            8888888888877766544433332   222  2334666677888888877777765521 245677888888777764


Q ss_pred             ccHHHHHHHHHHHhcCCCCc--------chHHHHHHHHHHhcCCChHHHH
Q 040580          233 RKFFMLGEFLRDVGLGRKDL--------GNLLWNLLLLSYAGNFKMKSLQ  274 (412)
Q Consensus       233 ~~~~~a~~~~~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~a~  274 (412)
                       +.++..+.++.... +.+.        ....|.-++-.|.+-.+++.|.
T Consensus       277 -~PeKlmEHlklf~s-riNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          277 -KPQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             -CTTHHHHHHTTSSS-SSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             -CHHHHHHHHHHHHH-hccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence             34444444433211 1111        1245677777777777776654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=84.91  E-value=34  Score=34.28  Aligned_cols=255  Identities=11%  Similarity=0.042  Sum_probs=120.4

Q ss_pred             HHhcCChHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC--CC---CHH--hHHHHHHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSS--FVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA--DL---LPE--VYSRAISCF  159 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~---~~~--~~~~li~~~  159 (412)
                      ....|+.+++..+++.-...+  -.+....-..+.-+...+|..+++..++.......-  .-   ++.  .-.++--+.
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            344566666655554443211  012223333333444555555566666655443221  00   011  112222223


Q ss_pred             HhcCC-hHHHHHHHHHHHHCCCCCChHHHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--hccc
Q 040580          160 GKQGQ-LELMENTLKEMVSRGFSVDSATGN--AFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYL--KERK  234 (412)
Q Consensus       160 ~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~~~  234 (412)
                      +-.|. -+++.+.+..+....- +......  ++-..+.-.|+.+-...++..+.+.   .+..+...+..+++  ..|+
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~---~~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQET---QHGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTC
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhcc---CcHHHHHHHHHHHHhhhCCC
Confidence            22332 2345555555544211 1111111  1222344556776667777666553   23344444444444  4566


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHH---HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHH
Q 040580          235 FFMLGEFLRDVGLGRKDLGNLLWN---LLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLS  311 (412)
Q Consensus       235 ~~~a~~~~~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~  311 (412)
                      .+.+..+++.+.... ++ ..-|.   ++..+|+..|+.....++++.+.+.. ..++.....+.-++...|+.+.+.++
T Consensus       540 ~e~~~~li~~L~~~~-dp-~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          540 QELADDLITKMLASD-ES-LLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             GGGGHHHHHHHHHCS-CH-HHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             hHHHHHHHHHHHhCC-CH-HHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            666666666654332 11 12232   33456677778766666777777531 22333333344445556666666666


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcccc-chHHHHHHhcc
Q 040580          312 LEHMKHESVGPDLVTYGCVVDAYLDKRLG-RNLDFGLSKMN  351 (412)
Q Consensus       312 ~~~m~~~g~~p~~~~~~~li~~~~~~~~~-~~a~~~~~~m~  351 (412)
                      +..+.+.+ .|..+.-..+.-+....|.. .++.+.+..+.
T Consensus       617 v~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          617 VQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            66554433 45555444444455555554 35666666664

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.77  E-value=8.1  Score=34.89  Aligned_cols=99  Identities=11%  Similarity=0.009  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC--HHhHHHHHHHHHhcCChHHHHHHHHHHHH---CCCCCChHH--H
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLL--PEVYSRAISCFGKQGQLELMENTLKEMVS---RGFSVDSAT--G  187 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~~--~  187 (412)
                      .+...+...|.+.|+.+.|.+.|.++......+.  .+.+-.+|..+...+++..+...+.+...   .+-.|+...  .
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            4677888999999999999999999876543332  34777788888999999999988887643   233333221  0


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          188 NAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       188 ~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      ..-...+...+++..|...|-+....
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            11111234567888888877666543

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.50  E-value=3.3  Score=34.51  Aligned_cols=9  Identities=0%  Similarity=-0.049  Sum_probs=3.8

Q ss_pred             HHhcCCChh
Q 040580           53 DLGRKKKPH   61 (412)
Q Consensus        53 ~~~~~~~~~   61 (412)
                      ..++.|+.+
T Consensus        11 ~A~~~g~~~   19 (285)
T 1wdy_A           11 KAVQNEDVD   19 (285)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHcCCHH
Confidence            334444443

>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=84.07  E-value=5.3  Score=27.32  Aligned_cols=87  Identities=15%  Similarity=0.101  Sum_probs=58.5

Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHH
Q 040580          267 NFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFG  346 (412)
Q Consensus       267 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~  346 (412)
                      ....++|..+-+-+...+.  ....--+-+..+.+.|++++|..+.+.+    ..||...|-+|  +-.|.|....+..-
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~AL--ce~rlGl~s~le~r   91 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLAL--CEYRLGLGSALESR   91 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHH--HHHHHTCHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHH--HHHhcccHHHHHHH
Confidence            3467788877777776543  2222234455688899999998776653    37888888776  34477888888888


Q ss_pred             HHhccCCCCCCcccH
Q 040580          347 LSKMNLDDSPVVSTD  361 (412)
Q Consensus       347 ~~~m~~~~~p~~~~~  361 (412)
                      +..+.....|....|
T Consensus        92 L~~la~sg~p~~q~F  106 (116)
T 2p58_C           92 LNRLARSQDPRIQTF  106 (116)
T ss_dssp             HHHHTTCCCHHHHHH
T ss_pred             HHHHHhCCCHHHHHH
Confidence            877755555655444

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=82.53  E-value=12  Score=29.44  Aligned_cols=56  Identities=7%  Similarity=-0.058  Sum_probs=39.0

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 040580          127 IGCFNEIISIIDQVSCRNADLLPE-VYSRAISCFGKQGQLELMENTLKEMVSRGFSV  182 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  182 (412)
                      ++...++..+|..|...++..... .|......+...|++.+|.++|+.-.+++-.|
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            344567777777777777665544 66666677777777777777777777777666

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=82.35  E-value=10  Score=28.78  Aligned_cols=59  Identities=5%  Similarity=0.006  Sum_probs=30.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcC-CCC---CHH----hHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          117 LSDLMDAYGRIGCFNEIISIIDQVSCRN-ADL---LPE----VYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~---~~~----~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      +-.-++.+...+.++.|+-+.+-+.... ..+   +|.    ++..+.+++...|++.+|...|++.
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3344555666666666665555432211 111   121    4444556666666666666666664

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=80.94  E-value=48  Score=33.20  Aligned_cols=259  Identities=10%  Similarity=-0.040  Sum_probs=134.4

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHH--hHHHHHHHHHhcCChHHHHHHHHHHHHCCC-------CCChHHHHHHHHHH
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPE--VYSRAISCFGKQGQLELMENTLKEMVSRGF-------SVDSATGNAFIIYY  194 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-------~p~~~~~~~li~~~  194 (412)
                      ....|+.++++.++......+...++.  .-..+.-+....|..+++..++.......-       .+....-.++--+.
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            445667777766666543321112233  222344455566666677777777654311       01111112222222


Q ss_pred             --HhcCCHHHHHHHHHHHHhCCCCCCHHH--HHH--HHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCC
Q 040580          195 --SRFGSLTEMETAYGRLKRSRHLIDKEG--IRA--VSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNF  268 (412)
Q Consensus       195 --~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~--li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  268 (412)
                        .-.++. ++...+..+....   +..+  ...  +-..+.-.|+-+....++..+.....+ +..-..++.-++...|
T Consensus       464 a~~GS~~e-ev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e-~vrR~aalgLGll~~g  538 (963)
T 4ady_A          464 AAMGSANI-EVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHG-NITRGLAVGLALINYG  538 (963)
T ss_dssp             HSTTCCCH-HHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCH-HHHHHHHHHHHHHTTT
T ss_pred             HhcCCCCH-HHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcH-HHHHHHHHHHHhhhCC
Confidence              223443 4444444444322   2221  222  222344557777777777765433221 2233344445555788


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHH---HHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHH
Q 040580          269 KMKSLQREFMRMSEAGFHPDLTTFN---IRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDF  345 (412)
Q Consensus       269 ~~~~a~~~~~~m~~~~~~p~~~~~~---~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~  345 (412)
                      +.+.+..+++.+.... .|.. -|.   .+..+|+..|+.....+++..+.+.. ..+......+--++...|+.+.+.+
T Consensus       539 ~~e~~~~li~~L~~~~-dp~v-Rygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          539 RQELADDLITKMLASD-ESLL-RYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             CGGGGHHHHHHHHHCS-CHHH-HHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             ChHHHHHHHHHHHhCC-CHHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            9888888888887631 2332 232   34456788889888888988887642 2233333333334445788888888


Q ss_pred             HHHhccCCCCCCcccHHHHHHHHhc-CC-cccHHHHHHHhcc-CchHH
Q 040580          346 GLSKMNLDDSPVVSTDPYVFEAFGK-GD-FHSSSEAFLEFKR-QRKWT  390 (412)
Q Consensus       346 ~~~~m~~~~~p~~~~~~~li~~~~~-~~-~~~a~~~~~~~~~-~~~~~  390 (412)
                      +++.+.....|.+..-..+--+... |+ ..++.+.+..+.. +|..+
T Consensus       616 lv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~V  663 (963)
T 4ady_A          616 IVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFV  663 (963)
T ss_dssp             HTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHH
Confidence            8887744445655543333333322 33 3567777777654 44333

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=80.71  E-value=12  Score=27.15  Aligned_cols=20  Identities=5%  Similarity=-0.162  Sum_probs=8.1

Q ss_pred             HHHhcCCChHHHHHHHHHHH
Q 040580          262 LSYAGNFKMKSLQREFMRMS  281 (412)
Q Consensus       262 ~~~~~~g~~~~a~~~~~~m~  281 (412)
                      -++.+.|++++|.+..+.+.
T Consensus        86 vg~yklgdY~~Ar~y~d~lL  105 (134)
T 3o48_A           86 IGCYKLGEYSMAKRYVDTLF  105 (134)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHH
Confidence            33444444444444444333

---

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	412
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.56
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.22
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.21
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.2
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.18
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.18
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.14
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.03
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.89
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.84
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.63
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.58
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.58
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.53
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.48
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.48
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.47
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.43
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.42
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.41
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.31
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.3
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.27
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.22
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.22
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.18
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.1
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.07
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.04
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.85
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.84
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.84
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.83
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.77
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.77
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.76
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.71
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.68
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.62
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.61
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.51
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.5
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.42
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.28
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.22
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.9
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.79
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.78
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.53
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.04
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.51
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.42
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.65
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.86
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.63
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.03
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	86.97
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	84.13

>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=99.90  E-value=6.9e-20  Score=164.48  Aligned_cols=375  Identities=9%  Similarity=-0.063  Sum_probs=300.0

Q ss_pred             ccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           19 VPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        19 l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      +...+.+.|++++|.+.++++.+.   +..++..+...+.+.|++++|...|++..+.. +-+..++..+...+.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            344566889999999999987642   66788889999999999999999999998864 33678899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      ++|...+....+.. +.+..............+....+........... .................+....+...+.+.
T Consensus        84 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            99999999998875 5556666666666667777777776666665554 344556666777778888888888888887


Q ss_pred             HHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchH
Q 040580          176 VSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNL  255 (412)
Q Consensus       176 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  255 (412)
                      ..... -+...+..+...+...|+++.|...++...+.. +-+...+..+...+...|++++|...+++.....+. +..
T Consensus       162 ~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~  238 (388)
T d1w3ba_         162 IETQP-NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAV  238 (388)
T ss_dssp             HHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHH
T ss_pred             hccCc-chhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHH
Confidence            76532 245677788888999999999999999988754 336778899999999999999999999986554443 357


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 040580          256 LWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAY  334 (412)
Q Consensus       256 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  334 (412)
                      .+..+...+.+.|++++|+..|++..+.  .|+ ..++..+...+...|++++|...++...... +.+...+..+...+
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHH
Confidence            8888999999999999999999998875  454 6788889999999999999999999877643 34677888899999


Q ss_pred             HhccccchHHHHHHhc-cCCCCCCcccHHHHHHHHhc-CCcccHHHHHHHhc---cCchHHHHHHHHHHHHcCc
Q 040580          335 LDKRLGRNLDFGLSKM-NLDDSPVVSTDPYVFEAFGK-GDFHSSSEAFLEFK---RQRKWTYRKLIAVYLKKQL  403 (412)
Q Consensus       335 ~~~~~~~~a~~~~~~m-~~~~~p~~~~~~~li~~~~~-~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~  403 (412)
                      .+.|++++|.+.+++. ...+ -+...+..+-..|.+ |++++|.+.+.+..   |.++..|..++.+|.+.||
T Consensus       316 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999997 4332 233445555666766 99999999998754   4568899999999999886

>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=1.2e-18  Score=156.20  Aligned_cols=350  Identities=7%  Similarity=-0.053  Sum_probs=281.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ...+.+.|++++|++.|+++.+.. +-+...+..+...+.+.|++++|...|+..++.. +-+..+|..+..+|.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            445667899999999999998763 3367889999999999999999999999999875 55788999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                      ++|.+.+....... +................+....+............. ...............+....+...+...
T Consensus        84 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHh
Confidence            99999999998776 455556666666666667777776666666554333 4444555666677788888888888777


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh
Q 040580          211 KRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLT  290 (412)
Q Consensus       211 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  290 (412)
                      .... +.+...+..+...+...|++++|...+++.....++ +..+|..+...+...|++++|...+++..... ..+..
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  238 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHH
Confidence            7654 335778888889999999999999999876444333 35789999999999999999999999988764 44567


Q ss_pred             HHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHHHHHHhc
Q 040580          291 TFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYVFEAFGK  370 (412)
Q Consensus       291 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~li~~~~~  370 (412)
                      .+..+...+.+.|++++|...|++..+... -+...+..+...+...|++++|.+.++......+.+...+..+...+.+
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHH
Confidence            788889999999999999999999887432 2567888899999999999999999998843333455566666677766


Q ss_pred             -CCcccHHHHHHHhcc---CchHHHHHHHHHHHHcCcccccc
Q 040580          371 -GDFHSSSEAFLEFKR---QRKWTYRKLIAVYLKKQLRRNQI  408 (412)
Q Consensus       371 -~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~  408 (412)
                       |++++|.+.+.+...   .++.+|..++.+|.+.|++++|.
T Consensus       318 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~  359 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence             999999999998644   56888999999999999999984

>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=99.60  E-value=1e-12  Score=114.43  Aligned_cols=241  Identities=11%  Similarity=-0.000  Sum_probs=134.3

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ...+.+.|++++|++.|++..+.. +-+..+|..+..++...|++++|...|++..+.. +-+...+..+..+|...|++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccc
Confidence            344556666666666666666542 2245566666666666666666666666666543 33456666666666666666


Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                      ++|.+.+++...... .....+........                    ..+.......+..+...+...++...+...
T Consensus       104 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  162 (323)
T d1fcha_         104 RQACEILRDWLRYTP-AYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFLAA  162 (323)
T ss_dssp             HHHHHHHHHHHHTST-TTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhcc-chHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHHHH
Confidence            666666666644321 00000000000000                    000000111112223334455566666555


Q ss_pred             HhCC-CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-
Q 040580          211 KRSR-HLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD-  288 (412)
Q Consensus       211 ~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-  288 (412)
                      .+.. -.++..++..+...+...|++++|...+++.....++ +..+|..+...|...|++++|.+.|++..+.  .|+ 
T Consensus       163 l~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~  239 (323)
T d1fcha_         163 VRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGY  239 (323)
T ss_dssp             HHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHH--hhcc
Confidence            4432 1234556666666666677777777776664333332 3467777777777788888888887777654  343 


Q ss_pred             HhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          289 LTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       289 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      ..++..+..+|.+.|++++|...|++.++
T Consensus       240 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         240 IRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            55677777777788888888877777654

>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=99.56  E-value=2.6e-12  Score=111.75  Aligned_cols=240  Identities=10%  Similarity=-0.026  Sum_probs=143.6

Q ss_pred             cccccccCCCChHHHHHHHHHhhcc---ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           18 NVPSHQTHPKNGDLARKIIRYRKQE---GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF   94 (412)
Q Consensus        18 ~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~   94 (412)
                      .....+.+.|++++|...|+++.+.   +..+|..+..++...|++++|...|++..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            3455678999999999999998653   56789999999999999999999999998764 3367888889999999999


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHH-HHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 040580           95 VLEAQVVWEELLSSSFVLSVQVL-SDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLK  173 (412)
Q Consensus        95 ~~~a~~~~~~m~~~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  173 (412)
                      +++|.+.++......  |+.... ........ .                   .+.......+..+...+.+.++...|.
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~-~-------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAG-G-------------------AGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhh-h-------------------cccccchhhHHHHHHhhHHHHHHHHHH
Confidence            999999999998753  321110 00000000 0                   000000011111222333444444444


Q ss_pred             HHHHCCC-CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCc
Q 040580          174 EMVSRGF-SVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDL  252 (412)
Q Consensus       174 ~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  252 (412)
                      +..+... .++...+..+...+...|++++|...++...... +-+...+..+...|.+.|++++|.+.+++.....++ 
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-  238 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-  238 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhc-
Confidence            4433211 1233444445555555555555555555554432 123445555555555555665555555553222222 


Q ss_pred             chHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          253 GNLLWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      +..+|..+..+|.+.|++++|+..|++..+
T Consensus       239 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         239 YIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            236677777777777777777777776654

>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=99.22  E-value=4.7e-09  Score=90.09  Aligned_cols=183  Identities=7%  Similarity=-0.052  Sum_probs=83.2

Q ss_pred             HHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040580          131 NEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRL  210 (412)
Q Consensus       131 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  210 (412)
                      ++|..+|++..+...+.++..|...+....+.|+++.|..+|+++.+.........|...+....+.|+.+.|..+|+..
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            45555555554433333334555555555555556666655555554322222234555555555555555555555555


Q ss_pred             HhCCCCCCHHHHHHHHHH-HHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCc
Q 040580          211 KRSRHLIDKEGIRAVSFT-YLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAG-FHPD  288 (412)
Q Consensus       211 ~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~  288 (412)
                      .+.+.. +...|...... +...|+.+.|..+|+......+. +...|...+..+.+.|+.+.|..+|++..+.. ..|+
T Consensus       161 l~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            544321 22222222111 12223444444444443222111 22455555555555555555555555544321 2222


Q ss_pred             --HhHHHHHHHHHHccCChhHHHHHHHHH
Q 040580          289 --LTTFNIRAVAFSRMSMFWDLHLSLEHM  315 (412)
Q Consensus       289 --~~~~~~ll~~~~~~g~~~~a~~~~~~m  315 (412)
                        ...|...+.--...|+.+.+.++++++
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence              223444444444555555555555544

>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=99.21  E-value=4.5e-09  Score=90.24  Aligned_cols=220  Identities=10%  Similarity=-0.085  Sum_probs=154.9

Q ss_pred             hHHHHHHHHHHhcCCCCCHHhHHHHHHHHH--------------hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc
Q 040580           61 HLAHQLVNTVKSEGLLPDNSTLCALMLCYA--------------NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR  126 (412)
Q Consensus        61 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~--------------~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  126 (412)
                      +++..+|+++... ++-++..|..-+.-+.              ..+..+++..+|++.++...+.+...|..++....+
T Consensus        33 ~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            4456666666554 2334454444333222              123457788888888876556667788888888889


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH-HHHhcCCHHHHHH
Q 040580          127 IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFII-YYSRFGSLTEMET  205 (412)
Q Consensus       127 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~-~~~~~g~~~~a~~  205 (412)
                      .|+++.|..+|+++..........+|...+..+.+.|+++.|.++|+...+.+.. +...|..... -+...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHH
Confidence            9999999999998876442222337888888888899999999999988876433 3333333332 2344678899999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-CCCc--chHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          206 AYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG-RKDL--GNLLWNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      +|+.+.+.. +.++..+...+..+.+.|++++|..+|++.... +.+|  ....|...+.--...|+.+.+..+++++.+
T Consensus       191 i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999888753 446788888999999999999999999985332 2232  235788888877888999999999998876


Q ss_pred             c
Q 040580          283 A  283 (412)
Q Consensus       283 ~  283 (412)
                      .
T Consensus       270 ~  270 (308)
T d2onda1         270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.20  E-value=2.8e-08  Score=86.42  Aligned_cols=268  Identities=9%  Similarity=-0.036  Sum_probs=184.0

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHhcCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHhCC----CC-cCHHHHHHH
Q 040580           50 LVEDLGRKKKPHLAHQLVNTVKSEGLLPD----NSTLCALMLCYANNGFVLEAQVVWEELLSSS----FV-LSVQVLSDL  120 (412)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~-~~~~~~~~l  120 (412)
                      ....+...|++++|++++++..+.....+    ...+..+..++...|++++|...|+...+..    .. ....++..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            34556788999999999998877521111    2456677788889999999999998876521    11 123566777


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhc----CCCCCH---HhHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCChHHHHH
Q 040580          121 MDAYGRIGCFNEIISIIDQVSCR----NADLLP---EVYSRAISCFGKQGQLELMENTLKEMVSRGF----SVDSATGNA  189 (412)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~m~~~----~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~----~p~~~~~~~  189 (412)
                      ...+...|++..+...+.+....    .....+   ..+..+...+...|+++.+...+........    ......+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            78888999999998888766431    111111   2555667788889999999999988765322    223345555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCC---cchHHHHHH
Q 040580          190 FIIYYSRFGSLTEMETAYGRLKRS----RHLI--DKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKD---LGNLLWNLL  260 (412)
Q Consensus       190 li~~~~~~g~~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l  260 (412)
                      ....+...++...+...+......    +..+  ....+..+...+...|++++|...+.......+.   .....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            666777888888888887765442    1111  1234555666777889999999888875332222   223556677


Q ss_pred             HHHHhcCCChHHHHHHHHHHHH----cCCCCc-HhHHHHHHHHHHccCChhHHHHHHHHHHh
Q 040580          261 LLSYAGNFKMKSLQREFMRMSE----AGFHPD-LTTFNIRAVAFSRMSMFWDLHLSLEHMKH  317 (412)
Q Consensus       261 i~~~~~~g~~~~a~~~~~~m~~----~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  317 (412)
                      ...+...|++++|...+++...    .+..|+ ..++..+...|.+.|++++|.+.+++..+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888999999999999887753    344444 35667778888999999999998887654

>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=99.18  E-value=1.4e-08  Score=87.19  Aligned_cols=181  Identities=6%  Similarity=-0.074  Sum_probs=134.4

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNG-FVLEAQVVWEELLSSSFVLSVQVLSDLMDA  123 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  123 (412)
                      ..++.+-..+.+.+..++|+++++++.+.. +-+...|+....++...| ++++|...++...+.. +-+..+|+.+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            356666667778888999999999998863 225667888888877766 5899999999988875 5678889999999


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC----
Q 040580          124 YGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGS----  199 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----  199 (412)
                      +.+.|++++|++.++++.+.+ +-+..+|..+...+...|++++|++.+++..+.... +...|+.+...+.+.+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            999999999999999998765 556778999999999999999999999998886432 55667766655555554    


Q ss_pred             --HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040580          200 --LTEMETAYGRLKRSRHLIDKEGIRAVSFTYL  230 (412)
Q Consensus       200 --~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  230 (412)
                        +++|...+....+.. +.+...|+.+...+.
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~  231 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ  231 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence              456666666666543 224555555544443

>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=99.18  E-value=1.4e-08  Score=87.22  Aligned_cols=216  Identities=5%  Similarity=-0.079  Sum_probs=158.2

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCCHHhHHHHHH
Q 040580           79 NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIG-CFNEIISIIDQVSCRNADLLPEVYSRAIS  157 (412)
Q Consensus        79 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~  157 (412)
                      ...|+.+...+.+.+..++|+.+++.+++.. |-+...|+....++...| ++++|++.+++..+.+ +-+..+|+.+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            4566777777888999999999999999976 667788999999988876 5899999999998776 556779999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhccc---
Q 040580          158 CFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERK---  234 (412)
Q Consensus       158 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---  234 (412)
                      .+.+.|++++|+..++++.+.... +...|..+...+.+.|++++|...++.+.+.. +-+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            999999999999999999885332 67889999999999999999999999998865 2356677766655555443   


Q ss_pred             ---HHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHH
Q 040580          235 ---FFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHP-DLTTFNIRAVAFS  300 (412)
Q Consensus       235 ---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~  300 (412)
                         +++|.+.+.+.-...++ +...|+.+...+...| .+++...++...+....+ +...+..+...|.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence               56677666654333222 3466766665554443 466666666665432222 2334445555543

>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=99.14  E-value=2.1e-08  Score=87.24  Aligned_cols=267  Identities=11%  Similarity=-0.032  Sum_probs=189.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCcC-----HHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC--CCCH---HhH
Q 040580           83 CALMLCYANNGFVLEAQVVWEELLSSSFVLS-----VQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA--DLLP---EVY  152 (412)
Q Consensus        83 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~---~~~  152 (412)
                      ......+...|++++|.+++++.++.. +.+     ..+++.+..++...|++++|.+.|++..+...  ...+   ..+
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            334556788999999999999998753 222     35678888999999999999999998765321  1111   256


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHH----CCCCCC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCCHHH
Q 040580          153 SRAISCFGKQGQLELMENTLKEMVS----RGFSVD---SATGNAFIIYYSRFGSLTEMETAYGRLKRSR----HLIDKEG  221 (412)
Q Consensus       153 ~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~  221 (412)
                      ..+...+...|++..+...+.+...    .+..+.   ...+..+...+...|+++.+...+.......    .......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            6677888899999999999987653    222211   2345566678889999999999998887543    2233455


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHhc----CCCCc--chHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc---HhHH
Q 040580          222 IRAVSFTYLKERKFFMLGEFLRDVGL----GRKDL--GNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPD---LTTF  292 (412)
Q Consensus       222 ~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~  292 (412)
                      +......+...++..++...+.+...    ....+  ....+..+...+...|++++|...+++........+   ...+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            66666777788888888877765311    11111  124566677788889999999999887664322212   3345


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHh----CCCCCC-HhhHHHHHHHHHhccccchHHHHHHhc
Q 040580          293 NIRAVAFSRMSMFWDLHLSLEHMKH----ESVGPD-LVTYGCVVDAYLDKRLGRNLDFGLSKM  350 (412)
Q Consensus       293 ~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m  350 (412)
                      ..+..++...|++++|...++....    .+..|+ ...+..+-..|.+.|++++|.+.+++.
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~A  317 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  317 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5678889999999999999988753    455554 456777788899999999999998775

>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=99.03  E-value=7.6e-09  Score=86.18  Aligned_cols=94  Identities=15%  Similarity=0.048  Sum_probs=43.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      |..+..+|.+.|++++|...|+..++.. +-+..+|+.+..++.+.|++++|.+.|++..+.+ +-++.++..+...+..
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHH
Confidence            3333444444445555555444444432 3334444445555555555555555555444432 2223344444444444


Q ss_pred             cCChHHHHHHHHHHHH
Q 040580          162 QGQLELMENTLKEMVS  177 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~  177 (412)
                      .|++++|...|+...+
T Consensus       118 ~g~~~~A~~~~~~al~  133 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQ  133 (259)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHh
Confidence            5555555555544444

>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=99.02  E-value=6.9e-09  Score=86.44  Aligned_cols=153  Identities=7%  Similarity=-0.205  Sum_probs=118.0

Q ss_pred             ccCCCChHHHHHHHHHhhcc-------ChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCCh
Q 040580           23 QTHPKNGDLARKIIRYRKQE-------GFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFV   95 (412)
Q Consensus        23 ~~~~~~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~   95 (412)
                      +....+.+.|..-++++...       ....|..+...|.+.|++++|++.|++..+.. +-++.+|..+..++.+.|++
T Consensus         9 ~~~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~   87 (259)
T d1xnfa_           9 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   87 (259)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHH
Confidence            33445566676666666532       34567778889999999999999999999864 34688899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580           96 LEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus        96 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      ++|...|++..+.. +-+..++..+..++...|++++|.+.|++..+.. +.++.....+..++.+.+..+.+..+....
T Consensus        88 ~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_          88 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            99999999999875 4567889999999999999999999999998765 344545444555556666666666666665


Q ss_pred             HHC
Q 040580          176 VSR  178 (412)
Q Consensus       176 ~~~  178 (412)
                      ...
T Consensus       166 ~~~  168 (259)
T d1xnfa_         166 EKS  168 (259)
T ss_dssp             HHS
T ss_pred             hcc
Confidence            553

>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=98.89  E-value=1.2e-08  Score=88.66  Aligned_cols=271  Identities=9%  Similarity=-0.037  Sum_probs=164.4

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCH-HhHHHHH---HHHH-------hcCChHHHHHHHHHHHhCCCCcCHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDN-STLCALM---LCYA-------NNGFVLEAQVVWEELLSSSFVLSVQ  115 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll---~~~~-------~~~~~~~a~~~~~~m~~~~~~~~~~  115 (412)
                      +..++......+..++|++++++..+.  .|+. ..|+..-   ....       ..|++++|+.+++...+.. +.+..
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~  108 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYG  108 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHH
Confidence            344444444444558999999988875  4554 3444322   2222       2344778888888888765 55777


Q ss_pred             HHHHHHHHHHccCC--HHHHHHHHHHHhhcCCCCCHHhHH-HHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGC--FNEIISIIDQVSCRNADLLPEVYS-RAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFII  192 (412)
Q Consensus       116 ~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  192 (412)
                      .|..+..++...++  .++|...++++.+.+ +.+...+. .....+...+.++.|+..++...+.... +...|..+..
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~  186 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHH
Confidence            77777777766654  788888888887765 34455544 3446667788889999888888776433 5677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHH
Q 040580          193 YYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKS  272 (412)
Q Consensus       193 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  272 (412)
                      .+.+.|++++|...+....+..  |   ....+...+...+..+++...+.......+. +...+..+...+...|+.++
T Consensus       187 ~~~~~~~~~~A~~~~~~~~~~~--~---~~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~-~~~~~~~l~~~~~~~~~~~~  260 (334)
T d1dcea1         187 LLPQLHPQPDSGPQGRLPENVL--L---KELELVQNAFFTDPNDQSAWFYHRWLLGRAE-PLFRCELSVEKSTVLQSELE  260 (334)
T ss_dssp             HHHHHSCCCCSSSCCSSCHHHH--H---HHHHHHHHHHHHCSSCSHHHHHHHHHHSCCC-CSSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHhHHhH--H---HHHHHHHHHHHhcchhHHHHHHHHHHHhCcc-hhhHHHHHHHHHHHHhhHHH
Confidence            8888888776654443322210  1   1112223344445555555555543222222 12445555666666677777


Q ss_pred             HHHHHHHHHHcCCCC-cHhHHHHHHHHHHccCChhHHHHHHHHHHhCCCCCCH-hhHHHHHH
Q 040580          273 LQREFMRMSEAGFHP-DLTTFNIRAVAFSRMSMFWDLHLSLEHMKHESVGPDL-VTYGCVVD  332 (412)
Q Consensus       273 a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~  332 (412)
                      |...+.+..+.  .| +..++..+...+.+.|+.++|.+.++...+  +.|+. .-|..+-.
T Consensus       261 a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y~~~L~~  318 (334)
T d1dcea1         261 SCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLDDLRS  318 (334)
T ss_dssp             HHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHHHHHHHH
T ss_pred             HHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHHHHHHHH
Confidence            77777766643  33 345666677777778888888888877766  45543 33344433

>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=98.84  E-value=3.3e-08  Score=85.70  Aligned_cols=265  Identities=8%  Similarity=-0.127  Sum_probs=188.2

Q ss_pred             cCCCChHHHHHHHHHhhcc---ChhhHHHH---HHHHhc-------CCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHH
Q 040580           24 THPKNGDLARKIIRYRKQE---GFVDCASL---VEDLGR-------KKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYA   90 (412)
Q Consensus        24 ~~~~~~~~A~~~~~~~~~~---~~~~~~~l---i~~~~~-------~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~   90 (412)
                      .+....++|+.+++.+.+.   +...|+..   +..+..       .|.+++|+..++...+.. +-+...|..+..++.
T Consensus        40 ~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          40 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  118 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHH
Confidence            3444458999999987653   33345432   233333       344788999999988764 336777877777777


Q ss_pred             hcC--ChHHHHHHHHHHHhCCCCcCHHHHH-HHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHH
Q 040580           91 NNG--FVLEAQVVWEELLSSSFVLSVQVLS-DLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLEL  167 (412)
Q Consensus        91 ~~~--~~~~a~~~~~~m~~~~~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  167 (412)
                      ..+  +++++...++.+.+.. +++...+. .+...+...+..+.|+..+++....+ +-+...|+.+...+.+.|++++
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHH
Confidence            765  5889999999998875 55666654 45577778899999999999998776 5667799999999999999988


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhc
Q 040580          168 MENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGL  247 (412)
Q Consensus       168 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  247 (412)
                      |...+....+.  .|+   ...+...+...+..+++...+....... +++...+..+...+...++.++|.+.+.+...
T Consensus       197 A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            76655544332  121   1223344556677777888887776654 34455666777788888999999999987655


Q ss_pred             CCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh-HHHHHHHHHH
Q 040580          248 GRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLT-TFNIRAVAFS  300 (412)
Q Consensus       248 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~  300 (412)
                      ..+. +..+|..+...|...|+.++|+..|++..+.  .|+.. -|..+...+.
T Consensus       271 ~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         271 ENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             TCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             hCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence            5443 4578888999999999999999999999875  67644 4444444443

>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=98.63  E-value=1.9e-06  Score=67.70  Aligned_cols=127  Identities=13%  Similarity=-0.003  Sum_probs=90.4

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ...+...|+++.|++.|++.    .+|+..+|..+..++...|++++|++.|++.++.+ +.+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            34456778888888888754    25677778888888888888888888888888765 55677888888888888888


Q ss_pred             HHHHHHHHHHhhcC------------C--CCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 040580          131 NEIISIIDQVSCRN------------A--DLL-PEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV  182 (412)
Q Consensus       131 ~~a~~~~~~m~~~~------------~--~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  182 (412)
                      ++|.+.|++.....            .  .+. ..++..+..++.+.|++++|.+.|....+....|
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            88888888765321            0  011 1345566667778888888888877776654443

>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=98.58  E-value=6.1e-06  Score=69.42  Aligned_cols=128  Identities=6%  Similarity=-0.116  Sum_probs=77.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC----CCCc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCC---CCC--HHhHHHH
Q 040580           86 MLCYANNGFVLEAQVVWEELLSS----SFVL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNA---DLL--PEVYSRA  155 (412)
Q Consensus        86 l~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~~~~~l  155 (412)
                      ...|...+++++|.+.|.+..+.    +-++ -..+|+.+..+|.+.|++++|.+.+++..+...   .+.  ..++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            45577777888888777776542    2122 235677777788888888888777776543210   111  1244455


Q ss_pred             HHHHH-hcCChHHHHHHHHHHHH----CCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          156 ISCFG-KQGQLELMENTLKEMVS----RGFSVD-SATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       156 i~~~~-~~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      ...|. ..|++++|+..+.+..+    .+-.+. ..++..+...+...|++++|...|+++...
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence            55553 35777777777776543    121111 234566667777777777777777776654

>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=98.58  E-value=1.1e-06  Score=69.12  Aligned_cols=123  Identities=11%  Similarity=-0.046  Sum_probs=105.1

Q ss_pred             ccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHH
Q 040580           21 SHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQV  100 (412)
Q Consensus        21 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  100 (412)
                      ..+...|+++.|++.|+.+..++...|..+...+...|++++|++.|++..+.. +-+...|..+..++.+.|++++|..
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHH
Confidence            345678999999999999988999999999999999999999999999999875 4468889999999999999999999


Q ss_pred             HHHHHHhCC--------------CCcC-HHHHHHHHHHHHccCCHHHHHHHHHHHhhcC
Q 040580          101 VWEELLSSS--------------FVLS-VQVLSDLMDAYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       101 ~~~~m~~~~--------------~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      .|+..+...              .+++ ..++..+..++.+.|++++|.+.|+......
T Consensus        92 ~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          92 DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            999987531              0111 3667788889999999999999999887644

>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=98.53  E-value=2.1e-06  Score=72.34  Aligned_cols=168  Identities=10%  Similarity=0.052  Sum_probs=120.3

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhc----CCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHhC----C-CCcCHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSE----GLLPD-NSTLCALMLCYANNGFVLEAQVVWEELLSS----S-FVLSVQV  116 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~~  116 (412)
                      |......|...|++++|.+.|.+....    +-+++ ..+|..+..+|.+.|++++|...++...+.    | ......+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            445577888999999999999988652    21222 357888999999999999999999987652    2 1222456


Q ss_pred             HHHHHHHHH-ccCCHHHHHHHHHHHhhc----CCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCh------
Q 040580          117 LSDLMDAYG-RIGCFNEIISIIDQVSCR----NADLL-PEVYSRAISCFGKQGQLELMENTLKEMVSRGFSVDS------  184 (412)
Q Consensus       117 ~~~li~~~~-~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------  184 (412)
                      +..+...|. ..|++++|.+.+++..+.    +..+. ..++..+...+...|++++|+..|++..........      
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            777777774 469999999999887532    11111 226888899999999999999999998775322111      


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          185 ATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       185 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      ..+...+..+...|+++.|...++...+..
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            123344456667899999999998877653

>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=98.48  E-value=2.6e-06  Score=60.78  Aligned_cols=89  Identities=15%  Similarity=0.064  Sum_probs=46.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChH
Q 040580           87 LCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLE  166 (412)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  166 (412)
                      ..+.+.|++++|...|++.++.. +.+...|..+..++.+.|++++|++.+++..+.+ +.++..|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            33445555555555555555443 3444555555555555555555555555555443 344445555555555555555


Q ss_pred             HHHHHHHHHHH
Q 040580          167 LMENTLKEMVS  177 (412)
Q Consensus       167 ~a~~~~~~m~~  177 (412)
                      +|+..|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            55555555554

>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=98.48  E-value=0.00025  Score=59.99  Aligned_cols=178  Identities=13%  Similarity=0.112  Sum_probs=110.8

Q ss_pred             cCCchhhccccccccccCCCChHHHHHHHHHhhccChhhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 040580            8 LHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALML   87 (412)
Q Consensus         8 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~   87 (412)
                      +.+....+...+.+.|-+.|.++.|..++..+.     -|..++..+.+.++++.|.+++.+..      +..+|..+..
T Consensus         9 l~~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~   77 (336)
T d1b89a_           9 INGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF   77 (336)
T ss_dssp             TTCC----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHH
T ss_pred             HcCCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHH
Confidence            334445667788888889999999999998643     47778888889999999988876542      6788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHH
Q 040580           88 CYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLEL  167 (412)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  167 (412)
                      +|.+......+     .+.......+......++..|-..|.+++...+++...... ..++..++.++..|++.+ .++
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~k  150 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQK  150 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHH
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHH
Confidence            99888776554     23333344566667789999999999999999999876433 566778899999888864 344


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040580          168 MENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGR  209 (412)
Q Consensus       168 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  209 (412)
                      ..+.++...      +......++..|-+.+-++++.-++..
T Consensus       151 l~e~l~~~s------~~y~~~k~~~~c~~~~l~~elv~Ly~~  186 (336)
T d1b89a_         151 MREHLELFW------SRVNIPKVLRAAEQAHLWAELVFLYDK  186 (336)
T ss_dssp             HHHHHHHHS------TTSCHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHhcc------ccCCHHHHHHHHHHcCChHHHHHHHHh
Confidence            444333321      112233455666666665555444443

>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=98.47  E-value=6.7e-06  Score=58.59  Aligned_cols=92  Identities=11%  Similarity=-0.126  Sum_probs=60.4

Q ss_pred             HHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH
Q 040580           51 VEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF  130 (412)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  130 (412)
                      ...+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|+..++...+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            445566677777777777766653 3355666666666777777777777777766654 55666677777777777777


Q ss_pred             HHHHHHHHHHhhcC
Q 040580          131 NEIISIIDQVSCRN  144 (412)
Q Consensus       131 ~~a~~~~~~m~~~~  144 (412)
                      ++|...|++..+..
T Consensus        88 ~~A~~~~~~a~~~~  101 (117)
T d1elwa_          88 EEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhC
Confidence            77777777666543

>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=98.43  E-value=2.6e-06  Score=67.27  Aligned_cols=99  Identities=9%  Similarity=-0.051  Sum_probs=60.7

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHH
Q 040580           77 PDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAI  156 (412)
Q Consensus        77 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li  156 (412)
                      |+...+......+.+.|++++|+..|+..++.. |.+...|+.+..+|.+.|++++|...|++..+.+ +-++.+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            555555556666666666666666666666554 4456666666666666666666666666665432 22344666666


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 040580          157 SCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       157 ~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      .+|.+.|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            666666666666666665543

>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=98.42  E-value=7e-06  Score=62.13  Aligned_cols=88  Identities=10%  Similarity=-0.064  Sum_probs=41.4

Q ss_pred             HHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHH
Q 040580           53 DLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNE  132 (412)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  132 (412)
                      .+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|...|+..++.. +-+..+|..+..++...|++++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHH
Confidence            3444455555555555544432 2234444444444455555555555555544433 3334444444555555555555


Q ss_pred             HHHHHHHHhh
Q 040580          133 IISIIDQVSC  142 (412)
Q Consensus       133 a~~~~~~m~~  142 (412)
                      |.+.+++...
T Consensus        97 A~~~~~~a~~  106 (159)
T d1a17a_          97 ALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>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=98.41  E-value=8.3e-06  Score=61.69  Aligned_cols=92  Identities=11%  Similarity=0.029  Sum_probs=71.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCC
Q 040580           85 LMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQ  164 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  164 (412)
                      ....|.+.|++++|...|+..++.+ +-+...|..+..+|...|++++|.+.|++..+.+ +-++.+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3456778888888888888888775 5577788888888888888888888888887665 4556678888888888888


Q ss_pred             hHHHHHHHHHHHHC
Q 040580          165 LELMENTLKEMVSR  178 (412)
Q Consensus       165 ~~~a~~~~~~m~~~  178 (412)
                      +++|...+++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            88888888887774

>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=98.31  E-value=7.3e-06  Score=64.58  Aligned_cols=99  Identities=15%  Similarity=0.028  Sum_probs=85.1

Q ss_pred             CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHH
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGFSV-DSATGNA  189 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~  189 (412)
                      .|++..+......+.+.|++++|+..|++..+.+ +-++..|+.+..+|.+.|++++|+..|++..+.  .| +..+|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHH
Confidence            4777788888899999999999999999988776 677889999999999999999999999998874  45 4667888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 040580          190 FIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       190 li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      +..++.+.|++++|...|+...+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999988764

>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=98.30  E-value=4.2e-06  Score=60.01  Aligned_cols=98  Identities=6%  Similarity=-0.041  Sum_probs=59.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCH---HHHHHHHHHHhhcCCCCC-HHhHHHHHHHH
Q 040580           84 ALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCF---NEIISIIDQVSCRNADLL-PEVYSRAISCF  159 (412)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~~~-~~~~~~li~~~  159 (412)
                      .+++.+...+++++|++.|+..++.+ +.+..++..+..++.+.++.   ++|.++|+++...+..++ +.+|..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45566666667777777777776655 55666666666666654443   346666766654432222 12556666667


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCh
Q 040580          160 GKQGQLELMENTLKEMVSRGFSVDS  184 (412)
Q Consensus       160 ~~~g~~~~a~~~~~~m~~~g~~p~~  184 (412)
                      .+.|++++|+..|++..+.  .|+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~--~P~~  105 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT--EPQN  105 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHhhhHHHHHHHHHHHHh--CcCC
Confidence            7777777777777777663  4543

>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=98.27  E-value=5.1e-06  Score=58.69  Aligned_cols=84  Identities=8%  Similarity=-0.051  Sum_probs=36.8

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      +.+.|++++|...|++.++.. +-+..+|..+..++.+.|++++|...|++..+.+ +-++.+|..+...|...|++++|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHH
Confidence            344444444444444444432 2234444444444444444444444444444332 22333444444444444444444


Q ss_pred             HHHHHH
Q 040580          169 ENTLKE  174 (412)
Q Consensus       169 ~~~~~~  174 (412)
                      ++.+++
T Consensus       104 ~~~l~~  109 (112)
T d1hxia_         104 LASLRA  109 (112)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>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=98.22  E-value=0.00084  Score=54.86  Aligned_cols=62  Identities=13%  Similarity=0.053  Sum_probs=32.4

Q ss_pred             hhHHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHhCC
Q 040580           45 VDCASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYAN----NGFVLEAQVVWEELLSSS  109 (412)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~  109 (412)
                      ..+..+-..+-+.+++++|++.|++..+.|   +...+..|...|..    ..+...+...++...+.+
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            344444445555566666666666665544   44444444444443    345555555555555544

>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=98.22  E-value=0.00084  Score=54.84  Aligned_cols=227  Identities=7%  Similarity=-0.124  Sum_probs=140.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCHHhHH
Q 040580           78 DNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNADLLPEVYS  153 (412)
Q Consensus        78 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  153 (412)
                      |+..+..|...+.+.+++++|.+.|++..+.|   +...+..|...|..    ..+...|...++.....+.   +....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            45566667677777888888888888887766   44555556666665    5677888888887766552   33333


Q ss_pred             HHHHHHH----hcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 040580          154 RAISCFG----KQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYS----RFGSLTEMETAYGRLKRSRHLIDKEGIRAV  225 (412)
Q Consensus       154 ~li~~~~----~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  225 (412)
                      .+...+.    ...+.+.|...++.....|..+   ....+...+.    .......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            3333333    2456777888888777765422   2222222222    234566666666665553   356666667


Q ss_pred             HHHHHh----cccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCcHhHHHHHHH
Q 040580          226 SFTYLK----ERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAG----NFKMKSLQREFMRMSEAGFHPDLTTFNIRAV  297 (412)
Q Consensus       226 i~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  297 (412)
                      ...|..    ..+...+...++.....+   +..+...+-..|..    ..+.++|+..|++..+.|   +...+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            666665    345566666666554333   23555555544543    467888888888888766   3445555666


Q ss_pred             HHHc----cCChhHHHHHHHHHHhCCCCC
Q 040580          298 AFSR----MSMFWDLHLSLEHMKHESVGP  322 (412)
Q Consensus       298 ~~~~----~g~~~~a~~~~~~m~~~g~~p  322 (412)
                      .|.+    ..+.++|.+.|++..+.|..+
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            6654    336788888888887777654

>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=98.18  E-value=9.3e-06  Score=57.27  Aligned_cols=91  Identities=11%  Similarity=-0.096  Sum_probs=79.0

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc
Q 040580           48 ASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI  127 (412)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  127 (412)
                      -.+...+.+.|++++|+..|++..+.. +-+..+|..+..++.+.|++++|...|+..++.. +.+..+|..+..+|...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            345567788999999999999998864 2368889999999999999999999999999875 66789999999999999


Q ss_pred             CCHHHHHHHHHHH
Q 040580          128 GCFNEIISIIDQV  140 (412)
Q Consensus       128 ~~~~~a~~~~~~m  140 (412)
                      |++++|.+.|++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999999875

>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=1.6e-05  Score=56.87  Aligned_cols=96  Identities=14%  Similarity=0.147  Sum_probs=76.4

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCcC-HHHHHHHHHH
Q 040580           48 ASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGF---VLEAQVVWEELLSSSFVLS-VQVLSDLMDA  123 (412)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~~~~~-~~~~~~li~~  123 (412)
                      ..++..+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|..+++.+.+.+..|+ ..++..|..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            456777888889999999999998875 4577888888888877654   4568899999887654444 3478888999


Q ss_pred             HHccCCHHHHHHHHHHHhhcC
Q 040580          124 YGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus       124 ~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      |.+.|++++|.+.|+++.+.+
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            999999999999999998754

>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=98.07  E-value=0.0022  Score=54.00  Aligned_cols=205  Identities=11%  Similarity=0.082  Sum_probs=84.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           82 LCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        82 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      -..+...|.+.|.++.|..+|..+..         |..++..+.+.+++..|.+++.+..      ++.+|..+...+.+
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~   81 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVD   81 (336)
T ss_dssp             ------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHh
Confidence            33444455555555555555554332         3444555555555555555444331      23355555555554


Q ss_pred             cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHH
Q 040580          162 QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEF  241 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  241 (412)
                      .....-+     ++...+...+......++..|-..|.+++...+++..... -..+...++-++..|++.+ .++..+.
T Consensus        82 ~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~e~  154 (336)
T d1b89a_          82 GKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKMREH  154 (336)
T ss_dssp             TTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHHHH
T ss_pred             CcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHHHHH
Confidence            4433322     1222222233344445555555555555555555544322 1334455555555555543 2333333


Q ss_pred             HHHHhcCCCCcc--------hHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHccCChhHHHHHHH
Q 040580          242 LRDVGLGRKDLG--------NLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRAVAFSRMSMFWDLHLSLE  313 (412)
Q Consensus       242 ~~~~~~~~~~~~--------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  313 (412)
                      +..... ..++.        ...|.-++-.|.+.|++++|..+   |.++  .|+.......+..+.+.++.+...++..
T Consensus       155 l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~---~i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~  228 (336)
T d1b89a_         155 LELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVANVELYYRAIQ  228 (336)
T ss_dssp             HHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHH
T ss_pred             HHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHH---HHHc--chhhhhHHHHHHHHHccCChHHHHHHHH
Confidence            332211 11110        01233344444555555554432   2222  3333344445555555555554444444


Q ss_pred             H
Q 040580          314 H  314 (412)
Q Consensus       314 ~  314 (412)
                      .
T Consensus       229 ~  229 (336)
T d1b89a_         229 F  229 (336)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.04  E-value=0.00011  Score=55.84  Aligned_cols=95  Identities=13%  Similarity=-0.099  Sum_probs=45.4

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCC-CCC-------------HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCc
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGL-LPD-------------NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVL  112 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~-------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  112 (412)
                      +......+.+.|++++|+..|.+..+.-. .+.             ..+|+.+..+|.+.|++++|...++..++.+ |.
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~   94 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SN   94 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-cc
Confidence            33445566667777777777776654310 000             1223333444444444444444444444433 23


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580          113 SVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      ++.+|..+..+|...|++++|...|++..+
T Consensus        95 ~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          95 NEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444444444444444444444444444443

>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=97.85  E-value=0.0003  Score=52.36  Aligned_cols=61  Identities=15%  Similarity=0.023  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      +|+.+..+|.+.|++++|++.+++..+.+ +.++.+|..+..++...|++++|+..|++..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            45555555566666666666666555443 33444555556666666666666666655555

>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=97.84  E-value=0.00045  Score=52.38  Aligned_cols=96  Identities=11%  Similarity=0.047  Sum_probs=48.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCC-Cc-------------CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCC
Q 040580           81 TLCALMLCYANNGFVLEAQVVWEELLSSSF-VL-------------SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNAD  146 (412)
Q Consensus        81 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~-------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  146 (412)
                      .+......+.+.|++++|...|+..++... .+             ...+|+.+..+|.+.|++++|+..++.....+ +
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p   93 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S   93 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-c
Confidence            344455677888888888888888775310 00             01233334444444444444444444444332 2


Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          147 LLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       147 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      -++.+|..+..++...|++++|+..|++..+
T Consensus        94 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          94 NNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            2333444444444444444444444444444

>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=97.84  E-value=8.7e-05  Score=53.48  Aligned_cols=55  Identities=9%  Similarity=0.013  Sum_probs=26.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 040580           85 LMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQV  140 (412)
Q Consensus        85 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  140 (412)
                      +...+.+.|++++|...|++.++.+ +.+..++..+..+|.+.|++++|.+.++++
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~a   64 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKA   64 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHH
Confidence            3344444445555555554444443 334444444444555555555555444444

>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=97.83  E-value=0.00029  Score=53.86  Aligned_cols=60  Identities=7%  Similarity=0.094  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 040580          115 QVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      ..+..+...+.+.|++++|...++++...+ +.+...|..++.++.+.|+.++|++.|+++
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            344555555555555555555555555544 444445555555555555555555555554

>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=97.77  E-value=0.00036  Score=50.06  Aligned_cols=103  Identities=13%  Similarity=0.126  Sum_probs=80.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcC-------HHHHHH
Q 040580           47 CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLS-------VQVLSD  119 (412)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-------~~~~~~  119 (412)
                      +..+...+.+.|++++|++.|++..+.+ +.+...+..+..+|.+.|++++|...++.+++.. +.+       ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~-~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            4556778889999999999999999874 3468889999999999999999999999988642 111       347777


Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHH
Q 040580          120 LMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYS  153 (412)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  153 (412)
                      +...+...+++++|.+.|++....  .+++....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  116 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLK  116 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc--CCCHHHHH
Confidence            888888889999999999887654  34554433

>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=97.77  E-value=0.00024  Score=53.90  Aligned_cols=110  Identities=5%  Similarity=-0.078  Sum_probs=58.4

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc
Q 040580           48 ASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI  127 (412)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  127 (412)
                      ......+...|++++|++.|.+..+.-            ............       .... +.+...|..+..++.+.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~------------~~~~~~~~~~~~-------~~~~-~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYV------------EGSRAAAEDADG-------AKLQ-PVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH------------HHHHHHSCHHHH-------GGGH-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhh------------hhhhhhhhhHHH-------HHhC-hhhHHHHHHHHHHHHhh
Confidence            445556677888999988887765310            000000000000       0000 22344555556666666


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          128 GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       128 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      |++++|+..+++..+.+ +-++.+|..+..++.+.|++++|+..|++..+.
T Consensus        91 ~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          91 SDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            66666666666665543 344446666666666666666666666666553

>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=97.76  E-value=0.00081  Score=49.86  Aligned_cols=63  Identities=10%  Similarity=0.062  Sum_probs=37.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                      +|+.+..+|.+.|++++|+..+++..+... .+..+|..+..++...|++++|...|+...+..
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            455566666666666666666666555321 144556666666666666666666666665543

>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=97.71  E-value=0.00047  Score=52.67  Aligned_cols=99  Identities=13%  Similarity=0.032  Sum_probs=75.6

Q ss_pred             HHHhcCCChhHHHHHHHHHHhc--CCC-----C--------------CHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 040580           52 EDLGRKKKPHLAHQLVNTVKSE--GLL-----P--------------DNSTLCALMLCYANNGFVLEAQVVWEELLSSSF  110 (412)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~--g~~-----p--------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  110 (412)
                      ......|++++|.+.|.+....  |..     .              ....+..+...+.+.|++++|...++.+++.. 
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-   97 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-   97 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-
Confidence            3455566666666666666542  110     0              12456778888999999999999999999876 


Q ss_pred             CcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh-----cCCCCCHHh
Q 040580          111 VLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC-----RNADLLPEV  151 (412)
Q Consensus       111 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~~  151 (412)
                      +-+...|..++.+|.+.|+.++|++.|+++..     .|+.|++.+
T Consensus        98 P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          98 PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            67889999999999999999999999998743     578887764

>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=97.68  E-value=0.00042  Score=52.40  Aligned_cols=61  Identities=8%  Similarity=0.077  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          116 VLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      +|+.+..+|.+.|++++|+..+++....+ +.++.+|..+..++...|++++|...|.+..+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34445555555555555555555555443 34444555555555555555555555555554

>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=97.65  E-value=5.5e-05  Score=68.65  Aligned_cols=214  Identities=10%  Similarity=-0.040  Sum_probs=112.2

Q ss_pred             ccCCchhhccccccccccCCCChHHHHHHHHHhhccChhh---HHHHHHHHhcCCChhHHHHHHHHHHhcCCCCCHHhHH
Q 040580            7 SLHGSFKFKRFNVPSHQTHPKNGDLARKIIRYRKQEGFVD---CASLVEDLGRKKKPHLAHQLVNTVKSEGLLPDNSTLC   83 (412)
Q Consensus         7 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~   83 (412)
                      .+.+.....+..+..++...+++++|   ++++...|...   ++. ...+. ...+..+.+.++...+....++..-..
T Consensus        14 ~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~-e~~Lw-~~~y~~~ie~~r~~~k~~~~~~~~~~~   88 (497)
T d1ya0a1          14 VLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKV-EQDLW-NHAFKNQITTLQGQAKNRANPNRSEVQ   88 (497)
T ss_dssp             HHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTH-HHHHH-HHHTHHHHHHHHHHHSCSSCTTTTHHH
T ss_pred             HcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhH-HHHHH-HHHHHHHHHHHHHhcccccCccHHHHH
Confidence            44566677778888888888888876   45544333211   111 00111 112455667776666544334433222


Q ss_pred             HHHHHH--HhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh
Q 040580           84 ALMLCY--ANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK  161 (412)
Q Consensus        84 ~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  161 (412)
                      ..+..+  ...+.++.+...+....+.. +++...+..+...+.+.|+.+.|...++.......   ..++..+...+..
T Consensus        89 ~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~---~~~~~~LG~l~~~  164 (497)
T d1ya0a1          89 ANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC---QHCLVHLGDIARY  164 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHHH---HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH---HHHHHHHHHHHHH
Confidence            222221  22344444444444333332 34566777788888888888888877766543221   1367777888888


Q ss_pred             cCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040580          162 QGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKE  232 (412)
Q Consensus       162 ~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  232 (412)
                      .|++++|...|++..+.  .| +...|+.+...+...|+..+|...|.+..... +|-+..+..|...+.+.
T Consensus       165 ~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         165 RNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            89999999999888875  44 45788888888889999999998888887765 46777777777776654

>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=97.62  E-value=0.00079  Score=50.85  Aligned_cols=133  Identities=6%  Similarity=-0.159  Sum_probs=89.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC
Q 040580           84 ALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG  163 (412)
Q Consensus        84 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  163 (412)
                      .....+.+.|++++|...|.+.++..  +          ...........       .... +.....|..+..++.+.|
T Consensus        32 ~~~~~~~~~~~y~~Ai~~y~~al~~~--~----------~~~~~~~~~~~-------~~~~-~~~~~~~~nla~~~~~~~   91 (169)
T d1ihga1          32 NIGNTFFKSQNWEMAIKKYTKVLRYV--E----------GSRAAAEDADG-------AKLQ-PVALSCVLNIGACKLKMS   91 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHH--H----------HHHHHSCHHHH-------GGGH-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhh--h----------hhhhhhhhHHH-------HHhC-hhhHHHHHHHHHHHHhhc
Confidence            34555678888888888887766420  0          00000011100       0000 123347888889999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHH
Q 040580          164 QLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFML  238 (412)
Q Consensus       164 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  238 (412)
                      ++++|+..+++..+... .+...|..+..++.+.|++++|...|+...+.. +.+......+.....+.....+.
T Consensus        92 ~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1          92 DWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             CHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988532 266788899999999999999999999999864 23666777776665555444443

>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=97.61  E-value=0.00023  Score=52.39  Aligned_cols=111  Identities=9%  Similarity=0.000  Sum_probs=53.5

Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc----------CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcC
Q 040580           94 FVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI----------GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQG  163 (412)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  163 (412)
                      .+++|...|+...+.. |.+..++..+..++...          +.+++|...|++..+.+ +-++.+|..+..+|...|
T Consensus        12 ~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g   89 (145)
T d1zu2a1          12 LFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSFA   89 (145)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcc
Confidence            3444444444444433 33344444444444322          22345555555555443 334445555555554332


Q ss_pred             -----------ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 040580          164 -----------QLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSR  214 (412)
Q Consensus       164 -----------~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  214 (412)
                                 .+++|.+.|++..+  +.|+...|..-+..+      ..|.+++.++.+.|
T Consensus        90 ~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          90 FLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             cchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence                       34666666666665  356655555444333      34555555555554

>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=97.51  E-value=0.002  Score=48.47  Aligned_cols=62  Identities=3%  Similarity=-0.038  Sum_probs=34.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRS  213 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  213 (412)
                      +|+.+..+|.+.|++++|+..+++..+... .+...|..+..++...|++++|...|+...+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhccc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445555555666666666666666555321 14455555555666666666666666665554

>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=97.50  E-value=0.00012  Score=59.91  Aligned_cols=51  Identities=16%  Similarity=0.087  Sum_probs=26.6

Q ss_pred             hcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhh
Q 040580           91 NNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSC  142 (412)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  142 (412)
                      +.|++++|+..+++.++.. |.|...+..+...++..|++++|.+.|+...+
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3455555555555555543 44455555555555555555555555555543

>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=97.42  E-value=0.00021  Score=58.47  Aligned_cols=120  Identities=8%  Similarity=-0.111  Sum_probs=79.3

Q ss_pred             HhcCCChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHH
Q 040580           54 LGRKKKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEI  133 (412)
Q Consensus        54 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  133 (412)
                      ..+.|++++|+..+++..+.. +-|...+..+...++..|++++|...++...+.. +-+...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHH
Confidence            456799999999999998874 4477889999999999999999999999998864 33455555555444333333222


Q ss_pred             HHHHHHHhhcCCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 040580          134 ISIIDQVSCRNADLLPE---VYSRAISCFGKQGQLELMENTLKEMVSR  178 (412)
Q Consensus       134 ~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~  178 (412)
                      ..-   ........+|.   .+......+...|+.++|.+.+++..+.
T Consensus        84 ~~~---~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQG---AATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTS---CCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHH---hhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111   11111222222   3334456677889999999998887764

>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=97.28  E-value=0.00077  Score=49.44  Aligned_cols=113  Identities=13%  Similarity=0.032  Sum_probs=67.3

Q ss_pred             CChhHHHHHHHHHHhcCCCCCHHhHHHHHHHHHhc----------CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHcc
Q 040580           58 KKPHLAHQLVNTVKSEGLLPDNSTLCALMLCYANN----------GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRI  127 (412)
Q Consensus        58 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~----------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  127 (412)
                      +.+++|.+.|+...+.. +-+..++..+..++...          +.+++|...|+..++.+ |.+..+|..+..+|...
T Consensus        11 ~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHc
Confidence            34566666666665543 33455555555555432          34466777777777765 55667777777777655


Q ss_pred             C-----------CHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 040580          128 G-----------CFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELMENTLKEMVSRGF  180 (412)
Q Consensus       128 ~-----------~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  180 (412)
                      |           .++.|.+.|++..+..  |+-..|..-+..+      .+|.+++.+..+.|+
T Consensus        89 g~~~~~~~~~~~~~~~A~~~~~kal~l~--P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          89 AFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             ccchhhHHHHHHhHHHhhhhhhcccccC--CCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            4           3577888888776543  4444444444333      456677777666654

>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=97.22  E-value=0.00013  Score=66.13  Aligned_cols=226  Identities=8%  Similarity=-0.006  Sum_probs=119.6

Q ss_pred             HHHHHHHHHHhcCCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCH-HHHHHHHHHHHccCCHHHHHHHHHH
Q 040580           62 LAHQLVNTVKSEGLLPD-NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSV-QVLSDLMDAYGRIGCFNEIISIIDQ  139 (412)
Q Consensus        62 ~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~  139 (412)
                      +|.+.|++..+.  +|+ ...+..+..++...+++++|   |++++..+  |+. ..++..- .+.+ ..+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~-~Lw~-~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQ-DLWN-HAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHH-HHHH-HHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHH-HHHH-HHHHHHHHHHHH
Confidence            577888887763  454 34556666777777777765   77776542  321 2222111 1111 123456666766


Q ss_pred             HhhcCCCCCHHhHHHHHHHH--HhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 040580          140 VSCRNADLLPEVYSRAISCF--GKQGQLELMENTLKEMVSRGFSV-DSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHL  216 (412)
Q Consensus       140 m~~~~~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  216 (412)
                      ..+....++..-....+..+  ...+.++.++..+....+  +.| +...+..+...+.+.|+.+.|...+....+..  
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--  150 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--  150 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------CCHHHHHH--
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--
Confidence            65544333333222222222  223445555544443332  333 44566677777888888888888776655422  


Q ss_pred             CCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhHHHHHH
Q 040580          217 IDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQREFMRMSEAGFHPDLTTFNIRA  296 (412)
Q Consensus       217 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  296 (412)
                       ...++..+...+...|++++|...+++.....++ +..+|+.|...+...|+..+|+..|.+..... .|-..++..|.
T Consensus       151 -~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~  227 (497)
T d1ya0a1         151 -CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQ  227 (497)
T ss_dssp             -HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHH
Confidence             1346777788888899999999999886554444 35889999999999999999999998888654 56677888887


Q ss_pred             HHHHccC
Q 040580          297 VAFSRMS  303 (412)
Q Consensus       297 ~~~~~~g  303 (412)
                      ..+.+..
T Consensus       228 ~~~~~~~  234 (497)
T d1ya0a1         228 KALSKAL  234 (497)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            7776543

>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=96.90  E-value=0.0042  Score=41.47  Aligned_cols=65  Identities=14%  Similarity=0.052  Sum_probs=33.7

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHhCC-----CCc-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhcC
Q 040580           80 STLCALMLCYANNGFVLEAQVVWEELLSSS-----FVL-SVQVLSDLMDAYGRIGCFNEIISIIDQVSCRN  144 (412)
Q Consensus        80 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  144 (412)
                      ..+-.+...+.+.|++++|...|++.++..     ..+ ...+++.|..++.+.|++++|.+.++++.+.+
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            333445555555666666666555554321     011 13455556666666666666666666655443

>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=96.79  E-value=0.012  Score=43.38  Aligned_cols=24  Identities=8%  Similarity=-0.020  Sum_probs=12.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 040580          152 YSRAISCFGKQGQLELMENTLKEM  175 (412)
Q Consensus       152 ~~~li~~~~~~g~~~~a~~~~~~m  175 (412)
                      ++.+..+|...|++++|+..|++.
T Consensus       103 ~~~~g~~~~~lg~~eeA~~~~~~A  126 (156)
T d2hr2a1         103 VYSRALALDGLGRGAEAMPEFKKV  126 (156)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHH
Confidence            444455555555555555555554

>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=96.78  E-value=0.017  Score=42.45  Aligned_cols=62  Identities=5%  Similarity=0.039  Sum_probs=38.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHC-----CCCCC-----hHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSR-----GFSVD-----SATGNAFIIYYSRFGSLTEMETAYGRLKR  212 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~  212 (412)
                      .|+.+..+|...|++++|...+++..+.     ...++     ...+..+..+|...|++++|...|++..+
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666666666666666666554421     11111     12456677888888888888888887654

>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=96.53  E-value=0.016  Score=38.48  Aligned_cols=74  Identities=15%  Similarity=-0.019  Sum_probs=55.5

Q ss_pred             hHHHHHHHHhcCCChhHHHHHHHHHHhcC-----CCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCcCHHHHHH
Q 040580           46 DCASLVEDLGRKKKPHLAHQLVNTVKSEG-----LLPD-NSTLCALMLCYANNGFVLEAQVVWEELLSSSFVLSVQVLSD  119 (412)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g-----~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  119 (412)
                      .+-.+...+.+.|+++.|+..|++..+..     ..++ ..+++.|..++.+.|++++|...++++++.. |-+..+++.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a~~N   85 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            34466778888999999999998876531     1222 5678889999999999999999999999875 444556655


Q ss_pred             H
Q 040580          120 L  120 (412)
Q Consensus       120 l  120 (412)
                      +
T Consensus        86 l   86 (95)
T d1tjca_          86 L   86 (95)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=96.04  E-value=0.13  Score=36.10  Aligned_cols=81  Identities=9%  Similarity=-0.173  Sum_probs=38.9

Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh----cCC
Q 040580           93 GFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGR----IGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK----QGQ  164 (412)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~  164 (412)
                      .+.++|..+++...+.|   +...+..|...|..    ..+.++|.+.|++..+.+.   +.....|-..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLND---QDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccCc---chHHHHHHHHHHcCCccCCC
Confidence            34555555555555544   22333333333332    2345566666666555442   2333333333332    345


Q ss_pred             hHHHHHHHHHHHHCC
Q 040580          165 LELMENTLKEMVSRG  179 (412)
Q Consensus       165 ~~~a~~~~~~m~~~g  179 (412)
                      .++|..+|+...+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            666666666655554

>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=95.51  E-value=0.21  Score=34.24  Aligned_cols=64  Identities=16%  Similarity=0.126  Sum_probs=32.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 040580          151 VYSRAISCFGKQGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRH  215 (412)
Q Consensus       151 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  215 (412)
                      ..+..++....+|.-++-.++++.+.+. -+|++...-.+..+|.+.|...++.+++.+..+.|+
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3444455555555555555555554442 234444445555555555555555555555555554

>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=95.42  E-value=0.25  Score=34.61  Aligned_cols=81  Identities=4%  Similarity=-0.108  Sum_probs=34.8

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCC
Q 040580          128 GCFNEIISIIDQVSCRNADLLPEVYSRAISCFGK----QGQLELMENTLKEMVSRGFSVDSATGNAFIIYYSR----FGS  199 (412)
Q Consensus       128 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~  199 (412)
                      .+.++|.+.+++..+.|.   +.....|-..|..    ..+.++|.++|++..+.|.   ......|-..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLND---QDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHHHHHHhhhhccCc---chHHHHHHHHHHcCCccCCC
Confidence            344555555555544432   2333333333322    2345555555555555432   2222223333322    234


Q ss_pred             HHHHHHHHHHHHhCC
Q 040580          200 LTEMETAYGRLKRSR  214 (412)
Q Consensus       200 ~~~a~~~~~~~~~~~  214 (412)
                      .++|...|+...+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            555555555555544

>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=94.65  E-value=0.39  Score=32.85  Aligned_cols=141  Identities=9%  Similarity=-0.022  Sum_probs=97.2

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCHHhHHHHHHHHHhcCChHHH
Q 040580           89 YANNGFVLEAQVVWEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVSCRNADLLPEVYSRAISCFGKQGQLELM  168 (412)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  168 (412)
                      +.-.|.+++..++..+..+   +.+..-||.+|.-....-+-+...++++.+-.. +..+            ..++....
T Consensus        12 ~ildG~ve~Gveii~k~~~---ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-FDls------------~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDLD------------KCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCGG------------GCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHcc---cCCccccceeeeecccccchHHHHHHHHHHhhh-cCch------------hhhcHHHH
Confidence            3456788888888887776   345666777777777777777777777766422 2222            22333333


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcC
Q 040580          169 ENTLKEMVSRGFSVDSATGNAFIIYYSRFGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLG  248 (412)
Q Consensus       169 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  248 (412)
                      ...+-.+-     .+...+...+....+.|+-+...++++.+.+.+ +|++...-.+..+|.+.|...++.+++.+.-..
T Consensus        76 v~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            33322221     245667778888999999999999999987744 788888999999999999999999999887665


Q ss_pred             CCC
Q 040580          249 RKD  251 (412)
Q Consensus       249 ~~~  251 (412)
                      +..
T Consensus       150 G~K  152 (161)
T d1wy6a1         150 GEK  152 (161)
T ss_dssp             TCH
T ss_pred             hHH
Confidence            543

>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=92.86  E-value=0.32  Score=31.47  Aligned_cols=40  Identities=18%  Similarity=0.344  Sum_probs=17.2

Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHccCCHHHHHHHHHHHh
Q 040580          102 WEELLSSSFVLSVQVLSDLMDAYGRIGCFNEIISIIDQVS  141 (412)
Q Consensus       102 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  141 (412)
                      ++.+...++.|+..+..+.+++|-+.+++..|.++|+..+
T Consensus        29 mN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          29 MNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3333334444444444444444444444444444444443

>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=92.63  E-value=0.38  Score=31.08  Aligned_cols=59  Identities=15%  Similarity=0.139  Sum_probs=28.2

Q ss_pred             hHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhccccchHHHHHHhccCCCCCCcccHHHH
Q 040580          306 WDLHLSLEHMKHESVGPDLVTYGCVVDAYLDKRLGRNLDFGLSKMNLDDSPVVSTDPYV  364 (412)
Q Consensus       306 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~p~~~~~~~l  364 (412)
                      .++.+-+..+....+-|++....+.+++|.|..++..|.++++-++....++...|..+
T Consensus        23 we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yi   81 (105)
T d1v54e_          23 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYV   81 (105)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34444444444445555555555555555555555555555555533333333344433

>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=89.03  E-value=2.3  Score=28.89  Aligned_cols=26  Identities=12%  Similarity=-0.070  Sum_probs=12.8

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHH
Q 040580          257 WNLLLLSYAGNFKMKSLQREFMRMSE  282 (412)
Q Consensus       257 ~~~li~~~~~~g~~~~a~~~~~~m~~  282 (412)
                      +-.|..+|.+.|++++|...++.+.+
T Consensus        76 lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          76 LYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33444445555555555555555544

>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=86.97  E-value=3.2  Score=28.16  Aligned_cols=65  Identities=8%  Similarity=-0.040  Sum_probs=30.7

Q ss_pred             cCHHHHHHHHHHHHccC---CHHHHHHHHHHHhhcCCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 040580          112 LSVQVLSDLMDAYGRIG---CFNEIISIIDQVSCRNADLLP-EVYSRAISCFGKQGQLELMENTLKEMVS  177 (412)
Q Consensus       112 ~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~  177 (412)
                      |+..|--...-+++++.   +.+++..+|+++...+ +.+. +.+-.|.-+|.+.|++++|...++.+.+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33444333444444333   2345555555554332 2222 3444444555556666666666665555

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=84.13  E-value=11  Score=31.92  Aligned_cols=82  Identities=7%  Similarity=-0.132  Sum_probs=44.8

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHhcCCCCcchHHHHHHHHHHhcCCChHHHHHH
Q 040580          197 FGSLTEMETAYGRLKRSRHLIDKEGIRAVSFTYLKERKFFMLGEFLRDVGLGRKDLGNLLWNLLLLSYAGNFKMKSLQRE  276 (412)
Q Consensus       197 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  276 (412)
                      .+..+.+...+......+  .+.......+......+++..+...+..+...... .....-=+..++...|+.+.|...
T Consensus       265 ~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~-~~r~~YW~gRa~~~~G~~~~A~~~  341 (450)
T d1qsaa1         265 NDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKE-KDEWRYWQADLLLERGREAEAKEI  341 (450)
T ss_dssp             TTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHHHHHHhcCccccc-HHHHHHHHHHHHHHcCChhhHHHH
Confidence            344555666555554443  23344444444455566777777777665433222 123334445666677777777777


Q ss_pred             HHHHH
Q 040580          277 FMRMS  281 (412)
Q Consensus       277 ~~~m~  281 (412)
                      |....
T Consensus       342 ~~~~a  346 (450)
T d1qsaa1         342 LHQLM  346 (450)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77665