Citrus Sinensis ID: 043969

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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
Protein Sequence
MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHccc
Coil and Loop (DISEMBL)
miengfpttaRTFNILICTCGEVGLARKVVERFIKSklfnfrpfknsYNAILHALLGIRQYKLIEWVYQQmsdegyapdilTYNIVMCAKYRLGKLDQFHRLLDemgrsgfspdfhTYNILLHVLGKGDKPLAALNLLNHmkevgfdpsvlhFTTLMDglsragnlDACKYFFdemankgcmpdvVCYTVMITSYIAAGELEKAQDLFdgmitkgqlpnvftynSMIRGFCMAGKFDEACTMMKEmesrgcnpnfLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
Flexible Loop (DISEMBL)
miengfpttartfnILICTCGEVGLARKVVERFIKSklfnfrpfknsYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMvekgkyihlvskfkrykrc
Low Complexity Region (SEG)
MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
Disordered region (IsUnstruct)
*******TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFK*****
Disordered Region (DISOPRED)
***NGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
Disordered Region (DISEMBL)
********TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
Disordered Region (DISPRO)
****GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC
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	300	2.2.26 [Sep-21-2011]
Q7X6A5	477	Pentatricopeptide repeat-	yes	no	0.996	0.626	0.725	1e-135
Q9M1D8	473	Pentatricopeptide repeat-	no	no	0.996	0.632	0.712	1e-133
Q9LYZ9	819	Pentatricopeptide repeat-	no	no	0.976	0.357	0.311	1e-35
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.913	0.442	0.309	1e-34
Q9M302	659	Pentatricopeptide repeat-	no	no	0.986	0.449	0.279	9e-34
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.9	0.451	0.275	1e-33
Q8LDU5	466	Pentatricopeptide repeat-	no	no	0.95	0.611	0.322	2e-33
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.786	0.318	0.313	2e-33
Q9SIC9	918	Pentatricopeptide repeat-	no	no	0.936	0.306	0.301	7e-33
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.946	0.450	0.298	1e-32

>sp|Q7X6A5|PPR81_ARATH Pentatricopeptide repeat-containing protein At1g55630 OS=Arabidopsis thaliana GN=At1g55630 PE=2 SV=1

 Score =  481 bits (1239), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 217/299 (72%), Positives = 262/299 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MI++G+PTTA TFN+LICTCGE GLAR VVE+FIKSK FN+RP+K+SYNAILH+LLG++Q
Sbjct: 178 MIKDGYPTTACTFNLLICTCGEAGLARDVVEQFIKSKTFNYRPYKHSYNAILHSLLGVKQ 237

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLI+WVY+QM ++G+ PD+LTYNIVM A +RLGK D+ +RLLDEM + GFSPD +TYNI
Sbjct: 238 YKLIDWVYEQMLEDGFTPDVLTYNIVMFANFRLGKTDRLYRLLDEMVKDGFSPDLYTYNI 297

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH L  G+KPLAALNLLNHM+EVG +P V+HFTTL+DGLSRAG L+ACKYF DE    G
Sbjct: 298 LLHHLATGNKPLAALNLLNHMREVGVEPGVIHFTTLIDGLSRAGKLEACKYFMDETVKVG 357

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C PDVVCYTVMIT YI+ GELEKA+++F  M  KGQLPNVFTYNSMIRGFCMAGKF EAC
Sbjct: 358 CTPDVVCYTVMITGYISGGELEKAEEMFKEMTEKGQLPNVFTYNSMIRGFCMAGKFKEAC 417

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
            ++KEMESRGCNPNF+VY+TLV+NL+NAGK+ EAHEV++ MVEKG Y+HL+SK K+Y+R
Sbjct: 418 ALLKEMESRGCNPNFVVYSTLVNNLKNAGKVLEAHEVVKDMVEKGHYVHLISKLKKYRR 476

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M1D8|PP288_ARATH Pentatricopeptide repeat-containing protein At3g60050 OS=Arabidopsis thaliana GN=At3g60050 PE=2 SV=1

 Score =  476 bits (1224), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 213/299 (71%), Positives = 261/299 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           M+++GFPTTARTFN+LIC+CGE GLA++ V +F+KSK FN+RPFK+SYNAIL++LLG++Q
Sbjct: 175 MVQDGFPTTARTFNLLICSCGEAGLAKQAVVQFMKSKTFNYRPFKHSYNAILNSLLGVKQ 234

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLIEWVY+QM ++G++PD+LTYNI++   YRLGK+D+F RL DEM R GFSPD +TYNI
Sbjct: 235 YKLIEWVYKQMLEDGFSPDVLTYNILLWTNYRLGKMDRFDRLFDEMARDGFSPDSYTYNI 294

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH+LGKG+KPLAAL  LNHMKEVG DPSVLH+TTL+DGLSRAGNL+ACKYF DEM   G
Sbjct: 295 LLHILGKGNKPLAALTTLNHMKEVGIDPSVLHYTTLIDGLSRAGNLEACKYFLDEMVKAG 354

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C PDVVCYTVMIT Y+ +GEL+KA+++F  M  KGQLPNVFTYNSMIRG CMAG+F EAC
Sbjct: 355 CRPDVVCYTVMITGYVVSGELDKAKEMFREMTVKGQLPNVFTYNSMIRGLCMAGEFREAC 414

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
            ++KEMESRGCNPNF+VY+TLVS LR AGKL+EA +VIR MV+KG Y+HLV K  +Y+R
Sbjct: 415 WLLKEMESRGCNPNFVVYSTLVSYLRKAGKLSEARKVIREMVKKGHYVHLVPKMMKYRR 473

Arabidopsis thaliana (taxid: 3702)

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

 Score =  150 bits (379), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 94/302 (31%), Positives = 152/302 (50%), Gaps = 9/302 (2%)

Query: 3   ENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHAL--LGIRQ 60
           E+GF     ++  LI      G  R+ V  F K +    +P   +YN IL+    +G   
Sbjct: 201 EDGFSLDVYSYTSLISAFANSGRYREAVNVFKKMEEDGCKPTLITYNVILNVFGKMGTPW 260

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
            K+   V ++M  +G APD  TYN ++    R     +  ++ +EM  +GFS D  TYN 
Sbjct: 261 NKITSLV-EKMKSDGIAPDAYTYNTLITCCKRGSLHQEAAQVFEEMKAAGFSYDKVTYNA 319

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LL V GK  +P  A+ +LN M   GF PS++ + +L+   +R G LD      ++MA KG
Sbjct: 320 LLDVYGKSHRPKEAMKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAMELKNQMAEKG 379

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
             PDV  YT +++ +  AG++E A  +F+ M   G  PN+ T+N+ I+ +   GKF E  
Sbjct: 380 TKPDVFTYTTLLSGFERAGKVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRGKFTEMM 439

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM------VEKGKYIHLVSKF 294
            +  E+   G +P+ + +NTL++     G  +E   V + M       E+  +  L+S +
Sbjct: 440 KIFDEINVCGLSPDIVTWNTLLAVFGQNGMDSEVSGVFKEMKRAGFVPERETFNTLISAY 499

Query: 295 KR 296
            R
Sbjct: 500 SR 501

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  147 bits (370), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 89/288 (30%), Positives = 144/288 (50%), Gaps = 14/288 (4%)

Query: 1   MIENGFPTTARTFNILI---CTCGEVGLA----RKVVERFIKSKLFNFRPFKNSYNAILH 53
           M+E GF     T+  ++   C  G   LA    RK+ ER IK+ +         Y+ ++ 
Sbjct: 201 MVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQ-------YSIVID 253

Query: 54  ALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSP 113
           +L     +     ++ +M  +G   D++TY+ ++      GK D   ++L EM      P
Sbjct: 254 SLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIP 313

Query: 114 DFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFF 173
           D  T++ L+ V  K  K L A  L N M   G  P  + + +L+DG  +   L      F
Sbjct: 314 DVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMF 373

Query: 174 DEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA 233
           D M +KGC PD+V Y+++I SY  A  ++    LF  + +KG +PN  TYN+++ GFC +
Sbjct: 374 DLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQS 433

Query: 234 GKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM 281
           GK + A  + +EM SRG  P+ + Y  L+  L + G+L +A E+   M
Sbjct: 434 GKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKM 481

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M302|PP270_ARATH Pentatricopeptide repeat-containing protein At3g48810 OS=Arabidopsis thaliana GN=At3g48810 PE=2 SV=1

 Score =  144 bits (363), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 93/333 (27%), Positives = 151/333 (45%), Gaps = 37/333 (11%)

Query: 4   NGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKL 63
            GF  +   F  +I    +VGLA + VE F + K F   P    YN +L  LLG  + ++
Sbjct: 105 QGFHCSEDLFISVISVYRQVGLAERAVEMFYRIKEFGCDPSVKIYNHVLDTLLGENRIQM 164

Query: 64  IEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD--------- 114
           I  VY+ M  +G+ P++ TYN+++ A  +  K+D   +LL EM   G  PD         
Sbjct: 165 IYMVYRDMKRDGFEPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVIS 224

Query: 115 ---------------------FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHF 153
                                   YN L++ L K      A  L+  M E G  P+V+ +
Sbjct: 225 SMCEVGLVKEGRELAERFEPVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNVISY 284

Query: 154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMIT 213
           +TL++ L  +G ++    F  +M  +GC P++   + ++      G    A DL++ MI 
Sbjct: 285 STLINVLCNSGQIELAFSFLTQMLKRGCHPNIYTLSSLVKGCFLRGTTFDALDLWNQMIR 344

Query: 214 K-GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLA 272
             G  PNV  YN++++GFC  G   +A ++   ME  GC+PN   Y +L++     G L 
Sbjct: 345 GFGLQPNVVAYNTLVQGFCSHGNIVKAVSVFSHMEEIGCSPNIRTYGSLINGFAKRGSLD 404

Query: 273 EAHEVIRHMVEKG------KYIHLVSKFKRYKR 299
            A  +   M+  G       Y ++V    R+ +
Sbjct: 405 GAVYIWNKMLTSGCCPNVVVYTNMVEALCRHSK 437

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  143 bits (361), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 76/276 (27%), Positives = 147/276 (53%), Gaps = 6/276 (2%)

Query: 12  TFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVY 68
           T+N ++   C  G++  A +V++R ++   +   P   +Y  ++ A            + 
Sbjct: 206 TYNTILRSLCDSGKLKQAMEVLDRMLQRDCY---PDVITYTILIEATCRDSGVGHAMKLL 262

Query: 69  QQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG 128
            +M D G  PD++TYN+++    + G+LD+  + L++M  SG  P+  T+NI+L  +   
Sbjct: 263 DEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCST 322

Query: 129 DKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCY 188
            + + A  LL  M   GF PSV+ F  L++ L R G L       ++M   GC P+ + Y
Sbjct: 323 GRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSY 382

Query: 189 TVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES 248
             ++  +    ++++A +  + M+++G  P++ TYN+M+   C  GK ++A  ++ ++ S
Sbjct: 383 NPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSS 442

Query: 249 RGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK 284
           +GC+P  + YNT++  L  AGK  +A +++  M  K
Sbjct: 443 KGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAK 478

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LDU5|PP298_ARATH Pentatricopeptide repeat-containing protein At4g01400, mitochondrial OS=Arabidopsis thaliana GN=At4g01400 PE=2 SV=2

 Score =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 93/288 (32%), Positives = 139/288 (48%), Gaps = 3/288 (1%)

Query: 4   NGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQY-- 61
           +G+P T   F  LI    E  L  KV+  F K   FNF P     N IL  L+  R Y  
Sbjct: 113 SGYPLTGEIFTYLIKVYAEAKLPEKVLSTFYKMLEFNFTPQPKHLNRILDVLVSHRGYLQ 172

Query: 62  KLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNIL 121
           K  E +++     G  P+  +YN++M A      L   ++L  +M      PD  +Y IL
Sbjct: 173 KAFE-LFKSSRLHGVMPNTRSYNLLMQAFCLNDDLSIAYQLFGKMLERDVVPDVDSYKIL 231

Query: 122 LHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC 181
           +    +  +   A+ LL+ M   GF P  L +TTL++ L R   L         M  KGC
Sbjct: 232 IQGFCRKGQVNGAMELLDDMLNKGFVPDRLSYTTLLNSLCRKTQLREAYKLLCRMKLKGC 291

Query: 182 MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACT 241
            PD+V Y  MI  +        A+ + D M++ G  PN  +Y ++I G C  G FDE   
Sbjct: 292 NPDLVHYNTMILGFCREDRAMDARKVLDDMLSNGCSPNSVSYRTLIGGLCDQGMFDEGKK 351

Query: 242 MMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIH 289
            ++EM S+G +P+F V N LV    + GK+ EA +V+  +++ G+ +H
Sbjct: 352 YLEEMISKGFSPHFSVSNCLVKGFCSFGKVEEACDVVEVVMKNGETLH 399

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 75/239 (31%), Positives = 127/239 (53%)

Query: 47  SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEM 106
           SYN ++H +  + + K    +   M  +GY PD+++Y+ V+    R G+LD+  +L++ M
Sbjct: 248 SYNIVIHFVCQLGRIKEAHHLLLLMELKGYTPDVISYSTVVNGYCRFGELDKVWKLIEVM 307

Query: 107 GRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL 166
            R G  P+ + Y  ++ +L +  K   A    + M   G  P  + +TTL+DG  + G++
Sbjct: 308 KRKGLKPNSYIYGSIIGLLCRICKLAEAEEAFSEMIRQGILPDTVVYTTLIDGFCKRGDI 367

Query: 167 DACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSM 226
            A   FF EM ++   PDV+ YT +I+ +   G++ +A  LF  M  KG  P+  T+  +
Sbjct: 368 RAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMVEAGKLFHEMFCKGLEPDSVTFTEL 427

Query: 227 IRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
           I G+C AG   +A  +   M   GC+PN + Y TL+  L   G L  A+E++  M + G
Sbjct: 428 INGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDLDSANELLHEMWKIG 486

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIC9|PP178_ARATH Pentatricopeptide repeat-containing protein At2g31400, chloroplastic OS=Arabidopsis thaliana GN=At2g31400 PE=2 SV=1

 Score =  141 bits (355), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 85/282 (30%), Positives = 132/282 (46%), Gaps = 1/282 (0%)

Query: 5   GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHAL-LGIRQYKL 63
           G+  T   F+ LI   G  GL  + +  F   K +  RP   +YNA++ A   G  ++K 
Sbjct: 263 GYGNTVYAFSALISAYGRSGLHEEAISVFNSMKEYGLRPNLVTYNAVIDACGKGGMEFKQ 322

Query: 64  IEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH 123
           +   + +M   G  PD +T+N ++    R G  +    L DEM       D  +YN LL 
Sbjct: 323 VAKFFDEMQRNGVQPDRITFNSLLAVCSRGGLWEAARNLFDEMTNRRIEQDVFSYNTLLD 382

Query: 124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP 183
            + KG +   A  +L  M      P+V+ ++T++DG ++AG  D     F EM   G   
Sbjct: 383 AICKGGQMDLAFEILAQMPVKRIMPNVVSYSTVIDGFAKAGRFDEALNLFGEMRYLGIAL 442

Query: 184 DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM 243
           D V Y  +++ Y   G  E+A D+   M + G   +V TYN+++ G+   GK+DE   + 
Sbjct: 443 DRVSYNTLLSIYTKVGRSEEALDILREMASVGIKKDVVTYNALLGGYGKQGKYDEVKKVF 502

Query: 244 KEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
            EM+     PN L Y+TL+      G   EA E+ R     G
Sbjct: 503 TEMKREHVLPNLLTYSTLIDGYSKGGLYKEAMEIFREFKSAG 544

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score =  140 bits (353), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 100/335 (29%), Positives = 162/335 (48%), Gaps = 51/335 (15%)

Query: 12  TFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALL-GIRQYKLIEWV 67
           T++ILI   C   ++ LA  V+ + +K     + P   + N++L+    G R    +  V
Sbjct: 118 TYSILINCFCRRSQLSLALAVLAKMMK---LGYEPDIVTLNSLLNGFCHGNRISDAVSLV 174

Query: 68  YQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK 127
             QM + GY PD  T+N ++   +R  +  +   L+D M   G  PD  TY I+++ L K
Sbjct: 175 -GQMVEMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCK 233

Query: 128 -GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVV 186
            GD  LA L+LL  M++   +P V+ + T++D L    N++     F EM NKG  P+VV
Sbjct: 234 RGDIDLA-LSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVV 292

Query: 187 CY-----------------------------------TVMITSYIAAGELEKAQDLFDGM 211
            Y                                   + +I +++  G+L +A+ L+D M
Sbjct: 293 TYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEM 352

Query: 212 ITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKL 271
           I +   P++FTY+S+I GFCM  + DEA  M + M S+ C PN + YNTL+     A ++
Sbjct: 353 IKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRV 412

Query: 272 AEAHEVIRHMVEKG------KYIHLVSKFKRYKRC 300
            E  E+ R M ++G       Y  L+  F + + C
Sbjct: 413 DEGMELFREMSQRGLVGNTVTYTTLIHGFFQAREC 447

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	300
302143887	518	unnamed protein product [Vitis vinifera]	1.0	0.579	0.82	1e-147
225470179	514	PREDICTED: pentatricopeptide repeat-cont	1.0	0.583	0.82	1e-147
255539453	475	pentatricopeptide repeat-containing prot	0.963	0.608	0.813	1e-139
449446161	476	PREDICTED: pentatricopeptide repeat-cont	1.0	0.630	0.753	1e-135
449485620	476	PREDICTED: pentatricopeptide repeat-cont	1.0	0.630	0.753	1e-135
297853270	477	pentatricopeptide repeat-containing prot	0.996	0.626	0.725	1e-134
15222753	477	pentatricopeptide repeat-containing prot	0.996	0.626	0.725	1e-133
8778500	554	F20N2.6 [Arabidopsis thaliana]	0.996	0.539	0.725	1e-133
356534139	480	PREDICTED: pentatricopeptide repeat-cont	0.993	0.620	0.748	1e-133
356575965	480	PREDICTED: pentatricopeptide repeat-cont	0.993	0.620	0.755	1e-133

>gi|302143887|emb|CBI22748.3| unnamed protein product [Vitis vinifera]

 Score =  526 bits (1355), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 246/300 (82%), Positives = 271/300 (90%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MIE GFP TARTF ILICTCGE GLAR+ VERF+KSK FN+RPFK+SYNAILH LL ++Q
Sbjct: 219 MIEQGFPVTARTFQILICTCGEAGLARRAVERFVKSKNFNYRPFKHSYNAILHCLLCLKQ 278

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKL+EWVYQQM  E Y+PDILTYNIVMC KYRLGKLDQFHRLL+E+G +GFSPDFHT+NI
Sbjct: 279 YKLVEWVYQQMLLEDYSPDILTYNIVMCTKYRLGKLDQFHRLLEELGTNGFSPDFHTFNI 338

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH+LGKG+KPLAAL+LLNHMKEVGFDPSVLHFTTL+DGLSRAGNLDACKYFFDEM   G
Sbjct: 339 LLHLLGKGNKPLAALDLLNHMKEVGFDPSVLHFTTLIDGLSRAGNLDACKYFFDEMIKLG 398

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           CMPDVVCYTVMIT YI AGELE AQ LF+ M  KGQLPNVFTYNSMIRG CMA KF+EA 
Sbjct: 399 CMPDVVCYTVMITGYIVAGELEMAQGLFEEMTVKGQLPNVFTYNSMIRGLCMAEKFEEAR 458

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC 300
           +M+KEMESRGCNPNFLVYNTLV NLRNAGKL EAHEVIRHMV+KG+Y+HL+SKFK Y+RC
Sbjct: 459 SMLKEMESRGCNPNFLVYNTLVGNLRNAGKLKEAHEVIRHMVDKGQYVHLLSKFKGYRRC 518

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470179|ref|XP_002268211.1| PREDICTED: pentatricopeptide repeat-containing protein At1g55630-like [Vitis vinifera]

 Score =  526 bits (1354), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 246/300 (82%), Positives = 271/300 (90%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MIE GFP TARTF ILICTCGE GLAR+ VERF+KSK FN+RPFK+SYNAILH LL ++Q
Sbjct: 215 MIEQGFPVTARTFQILICTCGEAGLARRAVERFVKSKNFNYRPFKHSYNAILHCLLCLKQ 274

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKL+EWVYQQM  E Y+PDILTYNIVMC KYRLGKLDQFHRLL+E+G +GFSPDFHT+NI
Sbjct: 275 YKLVEWVYQQMLLEDYSPDILTYNIVMCTKYRLGKLDQFHRLLEELGTNGFSPDFHTFNI 334

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH+LGKG+KPLAAL+LLNHMKEVGFDPSVLHFTTL+DGLSRAGNLDACKYFFDEM   G
Sbjct: 335 LLHLLGKGNKPLAALDLLNHMKEVGFDPSVLHFTTLIDGLSRAGNLDACKYFFDEMIKLG 394

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           CMPDVVCYTVMIT YI AGELE AQ LF+ M  KGQLPNVFTYNSMIRG CMA KF+EA 
Sbjct: 395 CMPDVVCYTVMITGYIVAGELEMAQGLFEEMTVKGQLPNVFTYNSMIRGLCMAEKFEEAR 454

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC 300
           +M+KEMESRGCNPNFLVYNTLV NLRNAGKL EAHEVIRHMV+KG+Y+HL+SKFK Y+RC
Sbjct: 455 SMLKEMESRGCNPNFLVYNTLVGNLRNAGKLKEAHEVIRHMVDKGQYVHLLSKFKGYRRC 514

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539453|ref|XP_002510791.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223549906|gb|EEF51393.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  501 bits (1291), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 235/289 (81%), Positives = 259/289 (89%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           M+ENGFPTTARTFNILICTCG  GLARKVVERFIKSK FN+RPFK+SYNAIL +LL IR+
Sbjct: 180 MVENGFPTTARTFNILICTCGGAGLARKVVERFIKSKTFNYRPFKHSYNAILLSLLAIRE 239

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLIEWV+QQM  EGY PD LTYNI+MCAKYRLGKL  FHRLLDEMGRSGFSPDFHTYNI
Sbjct: 240 YKLIEWVHQQMLVEGYCPDTLTYNILMCAKYRLGKLHHFHRLLDEMGRSGFSPDFHTYNI 299

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLHVLGKG+KP+AAL LLNHMKE+GFDPS+LHFTTL+DGLSRAGNLDAC YFFDEM   G
Sbjct: 300 LLHVLGKGNKPIAALKLLNHMKEIGFDPSILHFTTLIDGLSRAGNLDACNYFFDEMIKNG 359

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
            +PDVVCYTVMIT YI AGELEKA+++FD MI +GQLPNVFTYNSMIRG CMAGKF+EA 
Sbjct: 360 FVPDVVCYTVMITGYIVAGELEKAREIFDEMIARGQLPNVFTYNSMIRGLCMAGKFEEAR 419

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIH 289
            M+KEM SRGC PNFLVYNTLV+NLRNAGKL+EA EVI+ M E G+Y+H
Sbjct: 420 CMLKEMGSRGCKPNFLVYNTLVNNLRNAGKLSEAREVIKEMAENGQYVH 468

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446161|ref|XP_004140840.1| PREDICTED: pentatricopeptide repeat-containing protein At1g55630-like [Cucumis sativus]

 Score =  487 bits (1254), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 226/300 (75%), Positives = 261/300 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           M E G+P TARTF ILICTCGE GLA++VVERFIKSK FNFRP+K+SYNAILH L+ ++Q
Sbjct: 177 MTEKGYPVTARTFMILICTCGEAGLAKRVVERFIKSKTFNFRPYKHSYNAILHGLVIVKQ 236

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLI WVY QM  + ++PDILTYN+++ +  +LGKLDQFHRLLDEM R GFSPDFHTYNI
Sbjct: 237 YKLIGWVYDQMLLDDHSPDILTYNVLLFSSCKLGKLDQFHRLLDEMARKGFSPDFHTYNI 296

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LL+VLGKGDKPLAALNLLNHM+EVGF P+VLHFTTL++GLSRAGNLDACKYFFDE+ N G
Sbjct: 297 LLYVLGKGDKPLAALNLLNHMREVGFGPNVLHFTTLINGLSRAGNLDACKYFFDELGNNG 356

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C+PDVVCYTVMITS+  AG+ EKA+  FD MI KGQLPNVFTYNSMIRGFCM GKF EA 
Sbjct: 357 CIPDVVCYTVMITSFTEAGQHEKARAFFDEMIMKGQLPNVFTYNSMIRGFCMVGKFKEAY 416

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC 300
           +M+ EMESRGC PNFLVY+TLVS LRNAGKL EAH+VI+ MVE G+Y HL++KFK Y+RC
Sbjct: 417 SMLSEMESRGCRPNFLVYSTLVSYLRNAGKLGEAHKVIKQMVENGQYAHLMTKFKGYRRC 476

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449485620|ref|XP_004157226.1| PREDICTED: pentatricopeptide repeat-containing protein At1g55630-like [Cucumis sativus]

 Score =  487 bits (1253), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 226/300 (75%), Positives = 261/300 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           M E G+P TARTF ILICTCGE GLA++VVERFIKSK FNFRP+K+SYNAILH L+ ++Q
Sbjct: 177 MTEKGYPVTARTFMILICTCGEAGLAKRVVERFIKSKTFNFRPYKHSYNAILHGLVIVKQ 236

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLI WVY QM  + ++PDILTYN+++ +  +LGKLDQFHRLLDEM R GFSPDFHTYNI
Sbjct: 237 YKLIGWVYDQMLLDDHSPDILTYNVLLFSSCKLGKLDQFHRLLDEMARKGFSPDFHTYNI 296

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LL+VLGKGDKPLAALNLLNHM+EVGF P+VLHFTTL++GLSRAGNLDACKYFFDE+ N G
Sbjct: 297 LLYVLGKGDKPLAALNLLNHMREVGFGPNVLHFTTLINGLSRAGNLDACKYFFDELGNNG 356

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C+PDVVCYTVMITS+  AG+ EKA+  FD MI KGQLPNVFTYNSMIRGFCM GKF EA 
Sbjct: 357 CIPDVVCYTVMITSFTEAGQHEKARAFFDEMIMKGQLPNVFTYNSMIRGFCMVGKFKEAY 416

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKRC 300
           +M+ EMESRGC PNFLVY+TLVS LRNAGKL EAH+VI+ MVE G+Y HL++KFK Y+RC
Sbjct: 417 SMLSEMESRGCRPNFLVYSTLVSYLRNAGKLGEAHKVIKRMVENGQYAHLMTKFKGYRRC 476

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297853270|ref|XP_002894516.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297340358|gb|EFH70775.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  482 bits (1241), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 217/299 (72%), Positives = 264/299 (88%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MI++G+PTTA TFN+LICTCGE GLAR VVE+FIKSK FN+RP+K+SYNAILH+LLG++Q
Sbjct: 178 MIKDGYPTTACTFNLLICTCGEAGLARDVVEQFIKSKTFNYRPYKHSYNAILHSLLGVKQ 237

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLI+WVY+QM ++G++PD+LTYNIVM A +RLGK D+ +RLLDEM + GFSPD +TYNI
Sbjct: 238 YKLIDWVYEQMLEDGFSPDVLTYNIVMFANFRLGKTDRLYRLLDEMVKDGFSPDLYTYNI 297

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH L  G+KPLAALNLL HM+EVG +P V+HFTTL+DGLSRAG L+ACKYF DEM   G
Sbjct: 298 LLHHLATGNKPLAALNLLTHMREVGVEPGVIHFTTLVDGLSRAGKLEACKYFMDEMVKVG 357

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C PDVVCYTVMIT YI+ GELEKA+++F  M  KGQLPNVFTYNSMIRGFCMAGKF EAC
Sbjct: 358 CTPDVVCYTVMITGYISGGELEKAEEMFKEMTEKGQLPNVFTYNSMIRGFCMAGKFKEAC 417

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
           +++KEMESRGCNPNF+VY+TLV+NLRNAGK+ EAHE+++ MVEKG Y+HL+S FK+Y+R
Sbjct: 418 SLLKEMESRGCNPNFVVYSTLVNNLRNAGKVLEAHEIVKDMVEKGHYVHLISMFKKYRR 476

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222753|ref|NP_175959.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75140283|sp|Q7X6A5.1|PPR81_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g55630 gi|30793841|gb|AAP40373.1| unknown protein [Arabidopsis thaliana] gi|30794021|gb|AAP40457.1| unknown protein [Arabidopsis thaliana] gi|110739296|dbj|BAF01561.1| hypothetical protein [Arabidopsis thaliana] gi|332195155|gb|AEE33276.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  481 bits (1239), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 217/299 (72%), Positives = 262/299 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MI++G+PTTA TFN+LICTCGE GLAR VVE+FIKSK FN+RP+K+SYNAILH+LLG++Q
Sbjct: 178 MIKDGYPTTACTFNLLICTCGEAGLARDVVEQFIKSKTFNYRPYKHSYNAILHSLLGVKQ 237

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLI+WVY+QM ++G+ PD+LTYNIVM A +RLGK D+ +RLLDEM + GFSPD +TYNI
Sbjct: 238 YKLIDWVYEQMLEDGFTPDVLTYNIVMFANFRLGKTDRLYRLLDEMVKDGFSPDLYTYNI 297

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH L  G+KPLAALNLLNHM+EVG +P V+HFTTL+DGLSRAG L+ACKYF DE    G
Sbjct: 298 LLHHLATGNKPLAALNLLNHMREVGVEPGVIHFTTLIDGLSRAGKLEACKYFMDETVKVG 357

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C PDVVCYTVMIT YI+ GELEKA+++F  M  KGQLPNVFTYNSMIRGFCMAGKF EAC
Sbjct: 358 CTPDVVCYTVMITGYISGGELEKAEEMFKEMTEKGQLPNVFTYNSMIRGFCMAGKFKEAC 417

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
            ++KEMESRGCNPNF+VY+TLV+NL+NAGK+ EAHEV++ MVEKG Y+HL+SK K+Y+R
Sbjct: 418 ALLKEMESRGCNPNFVVYSTLVNNLKNAGKVLEAHEVVKDMVEKGHYVHLISKLKKYRR 476

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|8778500|gb|AAF79508.1|AC002328_16 F20N2.6 [Arabidopsis thaliana]

 Score =  481 bits (1237), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 217/299 (72%), Positives = 262/299 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MI++G+PTTA TFN+LICTCGE GLAR VVE+FIKSK FN+RP+K+SYNAILH+LLG++Q
Sbjct: 255 MIKDGYPTTACTFNLLICTCGEAGLARDVVEQFIKSKTFNYRPYKHSYNAILHSLLGVKQ 314

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLI+WVY+QM ++G+ PD+LTYNIVM A +RLGK D+ +RLLDEM + GFSPD +TYNI
Sbjct: 315 YKLIDWVYEQMLEDGFTPDVLTYNIVMFANFRLGKTDRLYRLLDEMVKDGFSPDLYTYNI 374

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLH L  G+KPLAALNLLNHM+EVG +P V+HFTTL+DGLSRAG L+ACKYF DE    G
Sbjct: 375 LLHHLATGNKPLAALNLLNHMREVGVEPGVIHFTTLIDGLSRAGKLEACKYFMDETVKVG 434

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C PDVVCYTVMIT YI+ GELEKA+++F  M  KGQLPNVFTYNSMIRGFCMAGKF EAC
Sbjct: 435 CTPDVVCYTVMITGYISGGELEKAEEMFKEMTEKGQLPNVFTYNSMIRGFCMAGKFKEAC 494

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
            ++KEMESRGCNPNF+VY+TLV+NL+NAGK+ EAHEV++ MVEKG Y+HL+SK K+Y+R
Sbjct: 495 ALLKEMESRGCNPNFVVYSTLVNNLKNAGKVLEAHEVVKDMVEKGHYVHLISKLKKYRR 553

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356534139|ref|XP_003535615.1| PREDICTED: pentatricopeptide repeat-containing protein At3g60050-like [Glycine max]

 Score =  479 bits (1234), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 223/298 (74%), Positives = 260/298 (87%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           M+E G P TARTFNILI TCGE GLA+ +VERFIKSK FNFRPFK+SYNAILH LL + Q
Sbjct: 182 MVEKGLPATARTFNILIRTCGEAGLAKSLVERFIKSKTFNFRPFKHSYNAILHGLLVLNQ 241

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLIEWVYQQ+  +G++ DILTYNIVM AKYRLGKLDQFHRLLDEMGR+GFSPDFHT+NI
Sbjct: 242 YKLIEWVYQQLLLDGFSSDILTYNIVMYAKYRLGKLDQFHRLLDEMGRNGFSPDFHTFNI 301

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLHVLGKGDKPLAALNLLNHM+E+G +P+VLHFTTL+DGLSRAGNLDACKYFFDEM   G
Sbjct: 302 LLHVLGKGDKPLAALNLLNHMREMGIEPTVLHFTTLIDGLSRAGNLDACKYFFDEMIKNG 361

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C+PDVV YTVMIT Y+ AGE+EKA  ++  MI++ Q+PNVFTYNS+I+G CMAGKFDEAC
Sbjct: 362 CIPDVVAYTVMITGYVVAGEIEKALKMYQYMISREQVPNVFTYNSIIQGLCMAGKFDEAC 421

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYK 298
           +M+KEM+++GC+PN  VYNTL S LRNAGK A+AHEVIR M EKGKY  + S+F+ +K
Sbjct: 422 SMLKEMKTKGCSPNSFVYNTLASCLRNAGKTADAHEVIRQMTEKGKYADIHSRFRGHK 479

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575965|ref|XP_003556106.1| PREDICTED: pentatricopeptide repeat-containing protein At3g60050-like isoform 1 [Glycine max] gi|356575967|ref|XP_003556107.1| PREDICTED: pentatricopeptide repeat-containing protein At3g60050-like isoform 2 [Glycine max]

 Score =  479 bits (1232), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 225/298 (75%), Positives = 258/298 (86%)

Query: 1   MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
           MIE G P TARTFNILI TCGE GLA+ +VERFIKSK FNFRPFK+SYNAILH LL + Q
Sbjct: 182 MIEKGLPATARTFNILIRTCGEAGLAKNLVERFIKSKTFNFRPFKHSYNAILHGLLVLNQ 241

Query: 61  YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
           YKLIEWVYQQM  +G+  DILTYNIVM AKYRLGKLDQFHRLLDEMGR+GFSPDFHT+NI
Sbjct: 242 YKLIEWVYQQMLLDGFPSDILTYNIVMYAKYRLGKLDQFHRLLDEMGRNGFSPDFHTFNI 301

Query: 121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
           LLHVLGKGDKPLAALNLLNHM+E+G +P+VLHFTTL+DGLSRAGNLDACKYFFDEM    
Sbjct: 302 LLHVLGKGDKPLAALNLLNHMREMGIEPTVLHFTTLIDGLSRAGNLDACKYFFDEMIKNE 361

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
           C PDVV YTVMIT Y+ AGE+EKA +++  MI++ Q+PNVFTYNS+IRG CMAGKFDEAC
Sbjct: 362 CRPDVVAYTVMITGYVVAGEIEKALEMYQDMISREQVPNVFTYNSIIRGLCMAGKFDEAC 421

Query: 241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYK 298
           +M+KEME++GC+PN +VYNTL S LRNAGK A+AHEVIR M EK K+  + S+FK +K
Sbjct: 422 SMLKEMETKGCSPNSVVYNTLASCLRNAGKTADAHEVIRQMTEKVKHADIHSRFKGHK 479

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	300
TAIR|locus:2020527	477	AT1G55630 [Arabidopsis thalian	0.996	0.626	0.725	3.9e-124
TAIR|locus:2101422	473	AT3G60050 "AT3G60050" [Arabido	0.996	0.632	0.712	5.1e-122
TAIR|locus:2151281	819	AT5G02860 [Arabidopsis thalian	0.933	0.341	0.331	5e-35
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.93	0.492	0.295	3.1e-34
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.923	0.447	0.312	1.2e-32
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.89	0.446	0.323	2.2e-32
TAIR|locus:2174165	504	AT5G16640 [Arabidopsis thalian	0.946	0.563	0.284	2.3e-32
TAIR|locus:2061310	918	GUN1 "AT2G31400" [Arabidopsis	0.936	0.306	0.301	6.8e-32
TAIR|locus:2099458	659	AT3G48810 "AT3G48810" [Arabido	0.913	0.415	0.295	2.6e-31
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.946	0.376	0.304	5e-31

TAIR|locus:2020527 AT1G55630 [Arabidopsis thaliana (taxid:3702)]

 Score = 1220 (434.5 bits), Expect = 3.9e-124, P = 3.9e-124
 Identities = 217/299 (72%), Positives = 262/299 (87%)

Query:     1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
             MI++G+PTTA TFN+LICTCGE GLAR VVE+FIKSK FN+RP+K+SYNAILH+LLG++Q
Sbjct:   178 MIKDGYPTTACTFNLLICTCGEAGLARDVVEQFIKSKTFNYRPYKHSYNAILHSLLGVKQ 237

Query:    61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
             YKLI+WVY+QM ++G+ PD+LTYNIVM A +RLGK D+ +RLLDEM + GFSPD +TYNI
Sbjct:   238 YKLIDWVYEQMLEDGFTPDVLTYNIVMFANFRLGKTDRLYRLLDEMVKDGFSPDLYTYNI 297

Query:   121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
             LLH L  G+KPLAALNLLNHM+EVG +P V+HFTTL+DGLSRAG L+ACKYF DE    G
Sbjct:   298 LLHHLATGNKPLAALNLLNHMREVGVEPGVIHFTTLIDGLSRAGKLEACKYFMDETVKVG 357

Query:   181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
             C PDVVCYTVMIT YI+ GELEKA+++F  M  KGQLPNVFTYNSMIRGFCMAGKF EAC
Sbjct:   358 CTPDVVCYTVMITGYISGGELEKAEEMFKEMTEKGQLPNVFTYNSMIRGFCMAGKFKEAC 417

Query:   241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
              ++KEMESRGCNPNF+VY+TLV+NL+NAGK+ EAHEV++ MVEKG Y+HL+SK K+Y+R
Sbjct:   418 ALLKEMESRGCNPNFVVYSTLVNNLKNAGKVLEAHEVVKDMVEKGHYVHLISKLKKYRR 476

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2101422 AT3G60050 "AT3G60050" [Arabidopsis thaliana (taxid:3702)]

 Score = 1200 (427.5 bits), Expect = 5.1e-122, P = 5.1e-122
 Identities = 213/299 (71%), Positives = 261/299 (87%)

Query:     1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ 60
             M+++GFPTTARTFN+LIC+CGE GLA++ V +F+KSK FN+RPFK+SYNAIL++LLG++Q
Sbjct:   175 MVQDGFPTTARTFNLLICSCGEAGLAKQAVVQFMKSKTFNYRPFKHSYNAILNSLLGVKQ 234

Query:    61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
             YKLIEWVY+QM ++G++PD+LTYNI++   YRLGK+D+F RL DEM R GFSPD +TYNI
Sbjct:   235 YKLIEWVYKQMLEDGFSPDVLTYNILLWTNYRLGKMDRFDRLFDEMARDGFSPDSYTYNI 294

Query:   121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
             LLH+LGKG+KPLAAL  LNHMKEVG DPSVLH+TTL+DGLSRAGNL+ACKYF DEM   G
Sbjct:   295 LLHILGKGNKPLAALTTLNHMKEVGIDPSVLHYTTLIDGLSRAGNLEACKYFLDEMVKAG 354

Query:   181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
             C PDVVCYTVMIT Y+ +GEL+KA+++F  M  KGQLPNVFTYNSMIRG CMAG+F EAC
Sbjct:   355 CRPDVVCYTVMITGYVVSGELDKAKEMFREMTVKGQLPNVFTYNSMIRGLCMAGEFREAC 414

Query:   241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVSKFKRYKR 299
              ++KEMESRGCNPNF+VY+TLVS LR AGKL+EA +VIR MV+KG Y+HLV K  +Y+R
Sbjct:   415 WLLKEMESRGCNPNFVVYSTLVSYLRKAGKLSEARKVIREMVKKGHYVHLVPKMMKYRR 473

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 388 (141.6 bits), Expect = 5.0e-35, P = 5.0e-35
 Identities = 95/287 (33%), Positives = 148/287 (51%)

Query:     3 ENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHAL--LGIRQ 60
             E+GF     ++  LI      G  R+ V  F K +    +P   +YN IL+    +G   
Sbjct:   201 EDGFSLDVYSYTSLISAFANSGRYREAVNVFKKMEEDGCKPTLITYNVILNVFGKMGTPW 260

Query:    61 YKLIEWVYQQMSDEGYAPDILTYN-IVMCAKYRLGKLDQ-FHRLLDEMGRSGFSPDFHTY 118
              K+   V ++M  +G APD  TYN ++ C K   G L Q   ++ +EM  +GFS D  TY
Sbjct:   261 NKITSLV-EKMKSDGIAPDAYTYNTLITCCKR--GSLHQEAAQVFEEMKAAGFSYDKVTY 317

Query:   119 NILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMAN 178
             N LL V GK  +P  A+ +LN M   GF PS++ + +L+   +R G LD      ++MA 
Sbjct:   318 NALLDVYGKSHRPKEAMKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAMELKNQMAE 377

Query:   179 KGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE 238
             KG  PDV  YT +++ +  AG++E A  +F+ M   G  PN+ T+N+ I+ +   GKF E
Sbjct:   378 KGTKPDVFTYTTLLSGFERAGKVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRGKFTE 437

Query:   239 ACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
                +  E+   G +P+ + +NTL++     G  +E   V + M   G
Sbjct:   438 MMKIFDEINVCGLSPDIVTWNTLLAVFGQNGMDSEVSGVFKEMKRAG 484

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 3.1e-34, Sum P(2) = 3.1e-34
 Identities = 83/281 (29%), Positives = 145/281 (51%)

Query:     5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLI 64
             G     RT+ +LI    + G+ ++  E + K +     P   +YN +++ L    + K  
Sbjct:   228 GLVANERTYTVLINGLFKNGVKKQGFEMYEKMQEDGVFPNLYTYNCVMNQLCKDGRTKDA 287

Query:    65 EWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH- 123
               V+ +M + G + +I+TYN ++    R  KL++ ++++D+M   G +P+  TYN L+  
Sbjct:   288 FQVFDEMRERGVSCNIVTYNTLIGGLCREMKLNEANKVVDQMKSDGINPNLITYNTLIDG 347

Query:   124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP 183
               G G K   AL+L   +K  G  PS++ +  L+ G  R G+         EM  +G  P
Sbjct:   348 FCGVG-KLGKALSLCRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKMVKEMEERGIKP 406

Query:   184 DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM 243
               V YT++I ++  +  +EKA  L   M   G +P+V TY+ +I GFC+ G+ +EA  + 
Sbjct:   407 SKVTYTILIDTFARSDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLF 466

Query:   244 KEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK 284
             K M  + C PN ++YNT++      G    A ++++ M EK
Sbjct:   467 KSMVEKNCEPNEVIYNTMILGYCKEGSSYRALKLLKEMEEK 507

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 1.2e-32, P = 1.2e-32
 Identities = 89/285 (31%), Positives = 146/285 (51%)

Query:     1 MIENGFPTTARTFN-IL--ICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG 57
             M+E GF     T+  +L  +C  G   LA   ++ F K +  N +     Y+ ++ +L  
Sbjct:   201 MVEYGFQPDEVTYGPVLNRLCKSGNSALA---LDLFRKMEERNIKASVVQYSIVIDSLCK 257

Query:    58 IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEM-GRSGFSPDFH 116
                +     ++ +M  +G   D++TY+ ++      GK D   ++L EM GR+   PD  
Sbjct:   258 DGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRN-IIPDVV 316

Query:   117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEM 176
             T++ L+ V  K  K L A  L N M   G  P  + + +L+DG  +   L      FD M
Sbjct:   317 TFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLM 376

Query:   177 ANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF 236
              +KGC PD+V Y+++I SY  A  ++    LF  + +KG +PN  TYN+++ GFC +GK 
Sbjct:   377 VSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKL 436

Query:   237 DEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM 281
             + A  + +EM SRG  P+ + Y  L+  L + G+L +A E+   M
Sbjct:   437 NAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKM 481

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 359 (131.4 bits), Expect = 2.2e-32, P = 2.2e-32
 Identities = 90/278 (32%), Positives = 140/278 (50%)

Query:    12 TFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVY 68
             T+N++I   C  GE+  A  V++R   S      P   +YN IL +L    + K    V 
Sbjct:   174 TYNVMISGYCKAGEINNALSVLDRMSVS------PDVVTYNTILRSLCDSGKLKQAMEVL 227

Query:    69 QQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG 128
              +M      PD++TY I++ A  R   +    +LLDEM   G +PD  TYN+L++ + K 
Sbjct:   228 DRMLQRDCYPDVITYTILIEATCRDSGVGHAMKLLDEMRDRGCTPDVVTYNVLVNGICKE 287

Query:   129 DKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN-LDACKYFFDEMANKGCMPDVVC 187
              +   A+  LN M   G  P+V+    ++  +   G  +DA K   D M  KG  P VV 
Sbjct:   288 GRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLAD-MLRKGFSPSVVT 346

Query:   188 YTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME 247
             + ++I      G L +A D+ + M   G  PN  +YN ++ GFC   K D A   ++ M 
Sbjct:   347 FNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMV 406

Query:   248 SRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
             SRGC P+ + YNT+++ L   GK+ +A E++  +  KG
Sbjct:   407 SRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKG 444

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2174165 AT5G16640 [Arabidopsis thaliana (taxid:3702)]

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 83/292 (28%), Positives = 146/292 (50%)

Query:     5 GFPTTARTFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALL-GIRQ 60
             G P    T NIL+   C C ++ LA   + + IK       P   ++ ++L+    G R 
Sbjct:   111 GIPHNLCTCNILLNCFCRCSQLSLALSFLGKMIK---LGHEPSIVTFGSLLNGFCRGDRV 167

Query:    61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI 120
             Y  + +++ QM   GY P+++ YN ++    +  ++D    LL+ M + G  PD  TYN 
Sbjct:   168 YDAL-YMFDQMVGMGYKPNVVIYNTIIDGLCKSKQVDNALDLLNRMEKDGIGPDVVTYNS 226

Query:   121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG 180
             L+  L    +   A  +++ M +    P V  F  L+D   + G +   + F++EM  + 
Sbjct:   227 LISGLCSSGRWSDATRMVSCMTKREIYPDVFTFNALIDACVKEGRVSEAEEFYEEMIRRS 286

Query:   181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
               PD+V Y+++I        L++A+++F  M++KG  P+V TY+ +I G+C + K +   
Sbjct:   287 LDPDIVTYSLLIYGLCMYSRLDEAEEMFGFMVSKGCFPDVVTYSILINGYCKSKKVEHGM 346

Query:   241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVS 292
              +  EM  RG   N + Y  L+     AGKL  A E+ R MV  G + ++++
Sbjct:   347 KLFCEMSQRGVVRNTVTYTILIQGYCRAGKLNVAEEIFRRMVFCGVHPNIIT 398

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2061310 GUN1 "AT2G31400" [Arabidopsis thaliana (taxid:3702)]

 Score = 360 (131.8 bits), Expect = 6.8e-32, P = 6.8e-32
 Identities = 85/282 (30%), Positives = 132/282 (46%)

Query:     5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHAL-LGIRQYKL 63
             G+  T   F+ LI   G  GL  + +  F   K +  RP   +YNA++ A   G  ++K 
Sbjct:   263 GYGNTVYAFSALISAYGRSGLHEEAISVFNSMKEYGLRPNLVTYNAVIDACGKGGMEFKQ 322

Query:    64 IEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH 123
             +   + +M   G  PD +T+N ++    R G  +    L DEM       D  +YN LL 
Sbjct:   323 VAKFFDEMQRNGVQPDRITFNSLLAVCSRGGLWEAARNLFDEMTNRRIEQDVFSYNTLLD 382

Query:   124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP 183
              + KG +   A  +L  M      P+V+ ++T++DG ++AG  D     F EM   G   
Sbjct:   383 AICKGGQMDLAFEILAQMPVKRIMPNVVSYSTVIDGFAKAGRFDEALNLFGEMRYLGIAL 442

Query:   184 DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM 243
             D V Y  +++ Y   G  E+A D+   M + G   +V TYN+++ G+   GK+DE   + 
Sbjct:   443 DRVSYNTLLSIYTKVGRSEEALDILREMASVGIKKDVVTYNALLGGYGKQGKYDEVKKVF 502

Query:   244 KEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
              EM+     PN L Y+TL+      G   EA E+ R     G
Sbjct:   503 TEMKREHVLPNLLTYSTLIDGYSKGGLYKEAMEIFREFKSAG 544

GO:0003677 "DNA binding" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0031930 "mitochondria-nucleus signaling pathway" evidence=IMP

GO:0010019 "chloroplast-nucleus signaling pathway" evidence=IMP

TAIR|locus:2099458 AT3G48810 "AT3G48810" [Arabidopsis thaliana (taxid:3702)]

 Score = 351 (128.6 bits), Expect = 2.6e-31, P = 2.6e-31
 Identities = 84/284 (29%), Positives = 141/284 (49%)

Query:     5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLI 64
             GF  +   F  +I    +VGLA + VE F + K F   P    YN +L  LLG  + ++I
Sbjct:   106 GFHCSEDLFISVISVYRQVGLAERAVEMFYRIKEFGCDPSVKIYNHVLDTLLGENRIQMI 165

Query:    65 EWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV 124
               VY+ M  +G+ P++ TYN+++ A  +  K+D   +LL EM   G  PD  +Y  ++  
Sbjct:   166 YMVYRDMKRDGFEPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVI-- 223

Query:   125 LGKGDKPLAALNLLNHMKEVG--FDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCM 182
                    +  + L+   +E+   F+P V  +  L++GL +  +         EM  KG  
Sbjct:   224 -----SSMCEVGLVKEGRELAERFEPVVSVYNALINGLCKEHDYKGAFELMREMVEKGIS 278

Query:   183 PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTM 242
             P+V+ Y+ +I     +G++E A      M+ +G  PN++T +S+++G  + G   +A  +
Sbjct:   279 PNVISYSTLINVLCNSGQIELAFSFLTQMLKRGCHPNIYTLSSLVKGCFLRGTTFDALDL 338

Query:   243 MKEM-ESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
               +M    G  PN + YNTLV    + G + +A  V  HM E G
Sbjct:   339 WNQMIRGFGLQPNVVAYNTLVQGFCSHGNIVKAVSVFSHMEEIG 382

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048445 "carpel morphogenesis" evidence=RCA

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 5.0e-31, P = 5.0e-31
 Identities = 88/289 (30%), Positives = 145/289 (50%)

Query:     1 MIENGFPTTARTFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG 57
             M+E G   +  + N+++   C  G V  A   ++    S    F P + ++N +++ L  
Sbjct:   250 MVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEM--SNQDGFFPDQYTFNTLVNGLCK 307

Query:    58 IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHT 117
                 K    +   M  EGY PD+ TYN V+    +LG++ +   +LD+M     SP+  T
Sbjct:   308 AGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCSPNTVT 367

Query:   118 YNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMA 177
             YN L+  L K ++   A  L   +   G  P V  F +L+ GL    N       F+EM 
Sbjct:   368 YNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMR 427

Query:   178 NKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFD 237
             +KGC PD   Y ++I S  + G+L++A ++   M   G   +V TYN++I GFC A K  
Sbjct:   428 SKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTR 487

Query:   238 EACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGK 286
             EA  +  EME  G + N + YNTL+  L  + ++ +A +++  M+ +G+
Sbjct:   488 EAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQ 536

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

---

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)
Q7X6A5	PPR81_ARATH	No assigned EC number	0.7257	0.9966	0.6268	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	300
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-16
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-07
pfam01535	31	pfam01535, PPR, PPR repeat	2e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003

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

 Score = 70.1 bits (173), Expect = 5e-16
 Identities = 22/49 (44%), Positives = 31/49 (63%)

Query: 183 PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC 231
           PDVV Y  +I  Y   G++E+A  LF+ M  +G  PNV+TY+ +I G C
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 75.3 bits (185), Expect = 4e-15
 Identities = 55/247 (22%), Positives = 102/247 (41%), Gaps = 13/247 (5%)

Query: 43  PFK---NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQF 99
           PF    ++Y+A++ A + ++  + ++ VY  +   G+ PD    N V+    + G L   
Sbjct: 118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDA 177

Query: 100 HRLLDEM-GRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD 158
            RL DEM  R+       ++  ++  L        A  L   M E G D     F  ++ 
Sbjct: 178 RRLFDEMPERNLA-----SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR 232

Query: 159 GLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP 218
             +  G+  A +     +   G + D      +I  Y   G++E A+ +FDGM  K    
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK---- 288

Query: 219 NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVI 278
               +NSM+ G+ + G  +EA  +  EM   G + +   ++ ++        L  A +  
Sbjct: 289 TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

Query: 279 RHMVEKG 285
             ++  G
Sbjct: 349 AGLIRTG 355

Length = 697

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 74.9 bits (184), Expect = 7e-15
 Identities = 47/175 (26%), Positives = 82/175 (46%), Gaps = 2/175 (1%)

Query: 113 PDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYF 172
           P   T+N+L+ V         AL +L  ++E G       +TTL+   +++G +DA    
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 173 FDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM 232
           F EM N G   +V  +  +I     AG++ KA   +  M +K   P+   +N++I     
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 233 AGKFDEACTMMKEM--ESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
           +G  D A  ++ EM  E+   +P+ +    L+    NAG++  A EV + + E  
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN 609

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 74.1 bits (182), Expect = 9e-15
 Identities = 55/257 (21%), Positives = 102/257 (39%), Gaps = 10/257 (3%)

Query: 13  FNILICTCGEVGLARKVVER-F-----IKSKLFNFRPFKNSYNAILHALLGIRQYKLIEW 66
           FN LI  CG+ G     V+R F     +K++     P   +  A++ A     Q    + 
Sbjct: 545 FNALISACGQSG----AVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE 600

Query: 67  VYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG 126
           VYQ + +         Y I + +  + G  D    + D+M + G  PD   ++ L+ V G
Sbjct: 601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAG 660

Query: 127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVV 186
                  A  +L   ++ G     + +++LM   S A N       ++++ +    P V 
Sbjct: 661 HAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVS 720

Query: 187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM 246
               +IT+     +L KA ++   M   G  PN  TY+ ++         D    ++ + 
Sbjct: 721 TMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQA 780

Query: 247 ESRGCNPNFLVYNTLVS 263
           +  G  PN ++   +  
Sbjct: 781 KEDGIKPNLVMCRCITG 797

Length = 1060

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

 Score = 63.2 bits (155), Expect = 2e-13
 Identities = 21/48 (43%), Positives = 30/48 (62%)

Query: 218 PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNL 265
           P+V TYN++I G+C  GK +EA  +  EM+ RG  PN   Y+ L+  L
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 63.7 bits (155), Expect = 3e-11
 Identities = 49/220 (22%), Positives = 95/220 (43%), Gaps = 2/220 (0%)

Query: 68  YQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG--FSPDFHTYNILLHVL 125
           Y  M  +   PD + +N ++ A  + G +D+   +L EM        PD  T   L+   
Sbjct: 530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV 185
               +   A  +   + E     +   +T  ++  S+ G+ D     +D+M  KG  PD 
Sbjct: 590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Query: 186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKE 245
           V ++ ++     AG+L+KA ++      +G      +Y+S++     A  + +A  + ++
Sbjct: 650 VFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED 709

Query: 246 MESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
           ++S    P     N L++ L    +L +A EV+  M   G
Sbjct: 710 IKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

Length = 1060

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

 Score = 57.0 bits (139), Expect = 4e-11
 Identities = 18/50 (36%), Positives = 33/50 (66%)

Query: 78  PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK 127
           PD++TYN ++    + GK+++  +L +EM + G  P+ +TY+IL+  L K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 63.0 bits (153), Expect = 6e-11
 Identities = 51/229 (22%), Positives = 102/229 (44%), Gaps = 18/229 (7%)

Query: 67  VYQQMSDEGYAPDILTYN--IVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV 124
           V + + + G   D   Y   I  CAK   GK+D    +  EM  +G   + HT+  L+  
Sbjct: 459 VLRLVQEAGLKADCKLYTTLISTCAKS--GKVDAMFEVFHEMVNAGVEANVHTFGALIDG 516

Query: 125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC--- 181
             +  +   A      M+     P  + F  L+    ++G +D     FD +A       
Sbjct: 517 CARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAETH 573

Query: 182 --MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL---PNVFTYNSMIRGFCMAGKF 236
              PD +    ++ +   AG++++A++++  MI +  +   P V+T    +      G +
Sbjct: 574 PIDPDHITVGALMKACANAGQVDRAKEVYQ-MIHEYNIKGTPEVYT--IAVNSCSQKGDW 630

Query: 237 DEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
           D A ++  +M+ +G  P+ + ++ LV    +AG L +A E+++   ++G
Sbjct: 631 DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 60.7 bits (147), Expect = 3e-10
 Identities = 58/219 (26%), Positives = 98/219 (44%), Gaps = 20/219 (9%)

Query: 78  PDILTYNIVM--CAKYR--LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLA 133
           P + T+N++M  CA  +   G L +  RL+ E   +G   D   Y  L+    K  K  A
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGAL-RVLRLVQE---AGLKADCKLYTTLISTCAKSGKVDA 490

Query: 134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYF--FDEMANKGCMPDVVCYTVM 191
              + + M   G + +V  F  L+DG +RAG +   K F  +  M +K   PD V +  +
Sbjct: 491 MFEVFHEMVNAGVEANVHTFGALIDGCARAGQV--AKAFGAYGIMRSKNVKPDRVVFNAL 548

Query: 192 ITSYIAAGELEKAQDLFDGMITKGQ--LPNVFTYNSMIRGFCMAGKFD---EACTMMKEM 246
           I++   +G +++A D+   M  +     P+  T  ++++    AG+ D   E   M+ E 
Sbjct: 549 ISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY 608

Query: 247 ESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG 285
             +G  P   VY   V++    G    A  +   M +KG
Sbjct: 609 NIKG-TPE--VYTIAVNSCSQKGDWDFALSIYDDMKKKG 644

Length = 1060

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

 Score = 53.9 bits (131), Expect = 4e-10
 Identities = 15/48 (31%), Positives = 27/48 (56%)

Query: 148 PSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY 195
           P V+ + TL+DG  + G ++     F+EM  +G  P+V  Y+++I   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 52.4 bits (127), Expect = 1e-09
 Identities = 18/34 (52%), Positives = 24/34 (70%)

Query: 214 KGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME 247
           KG  P+V TYN++I G C AG+ DEA  ++ EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

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

 Score = 56.8 bits (137), Expect = 5e-09
 Identities = 31/102 (30%), Positives = 49/102 (48%), Gaps = 1/102 (0%)

Query: 181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC 240
              DVV + +++T Y+A G+   A +LF+ M+  G  P+  T+ S++     +G   +  
Sbjct: 550 HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGL 609

Query: 241 TMMKEMESR-GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM 281
                ME +    PN   Y  +V  L  AGKL EA+  I  M
Sbjct: 610 EYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 56.4 bits (136), Expect = 6e-09
 Identities = 39/150 (26%), Positives = 71/150 (47%), Gaps = 4/150 (2%)

Query: 134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMIT 193
           AL L   M++ G       F+ ++   SR   L+  K     +   G   D+V  T ++ 
Sbjct: 309 ALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVD 368

Query: 194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP 253
            Y   G +E A+++FD M  K    N+ ++N++I G+   G+  +A  M + M + G  P
Sbjct: 369 LYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAP 424

Query: 254 NFLVYNTLVSNLRNAGKLAEAHEVIRHMVE 283
           N + +  ++S  R +G   +  E+ + M E
Sbjct: 425 NHVTFLAVLSACRYSGLSEQGWEIFQSMSE 454

Length = 697

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 49.8 bits (120), Expect = 1e-08
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 221 FTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN 254
            TYN++I G C AG+ +EA  + KEM+ RG  P+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

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

 Score = 48.2 bits (116), Expect = 6e-08
 Identities = 21/50 (42%), Positives = 28/50 (56%)

Query: 113 PDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR 162
           PD  TYN L+    K  K   AL L N MK+ G  P+V  ++ L+DGL +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 51.8 bits (124), Expect = 2e-07
 Identities = 62/282 (21%), Positives = 97/282 (34%), Gaps = 94/282 (33%)

Query: 87  MCAKYRL-GKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV- 144
           M A Y L G  ++   L  EM  SG S D  T++I++ +  +       L LL H K+  
Sbjct: 296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR-------LALLEHAKQAH 348

Query: 145 ------GFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA 198
                 GF   ++  T L+D  S+ G ++  +  FD M  K    +++ +  +I  Y   
Sbjct: 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNH 404

Query: 199 GELEKAQDLFDGMITKGQLPNVFT------------------------------------ 222
           G   KA ++F+ MI +G  PN  T                                    
Sbjct: 405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH 464

Query: 223 YNSMIRGFCMAGKFDEACTMMKE-----------------------------------ME 247
           Y  MI      G  DEA  M++                                    M 
Sbjct: 465 YACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG 524

Query: 248 SRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIH 289
               N   ++ N   S    +G+ AEA +V+  +  KG  +H
Sbjct: 525 PEKLNNYVVLLNLYNS----SGRQAEAAKVVETLKRKGLSMH 562

Length = 697

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

 Score = 45.9 bits (110), Expect = 2e-07
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 221 FTYNSMIRGFCMAGKFDEACTMMKEMESRGC 251
            TYNS+I G+C AGK +EA  + KEM+ +G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 51.4 bits (123), Expect = 3e-07
 Identities = 50/219 (22%), Positives = 91/219 (41%), Gaps = 16/219 (7%)

Query: 67  VYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG 126
           V+ +M +     D+ ++N+++    + G  D+   L   M  +G  PD +T+  +L   G
Sbjct: 143 VFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCG 198

Query: 127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVV 186
                     +  H+   GF+  V     L+    + G++ + +  FD M  +    D +
Sbjct: 199 GIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCI 254

Query: 187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM 246
            +  MI+ Y   GE  +  +LF  M      P++ T  S+I    + G  DE   + +EM
Sbjct: 255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG--DE--RLGREM 310

Query: 247 ES----RGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM 281
                  G   +  V N+L+    + G   EA +V   M
Sbjct: 311 HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Length = 857

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

 Score = 47.2 bits (112), Expect = 6e-06
 Identities = 54/218 (24%), Positives = 91/218 (41%), Gaps = 25/218 (11%)

Query: 74  EGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLA 133
           +G+ P+ L    V C +      +QF         +    D  ++NILL       K   
Sbjct: 523 DGFLPNALLDLYVRCGRMNYA-WNQF---------NSHEKDVVSWNILLTGYVAHGKGSM 572

Query: 134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK-GCMPDVVCYTVMI 192
           A+ L N M E G +P  + F +L+   SR+G +     +F  M  K    P++  Y  ++
Sbjct: 573 AVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVV 632

Query: 193 TSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE----ACTMMKEMES 248
                AG+L +A +  + M      P+   + +++   C   +  E    A   + E++ 
Sbjct: 633 DLLGRAGKLTEAYNFINKMPIT---PDPAVWGALLNA-CRIHRHVELGELAAQHIFELD- 687

Query: 249 RGCNPNFLVYNTLVSNL-RNAGKLAEAHEVIRHMVEKG 285
               PN + Y  L+ NL  +AGK  E   V + M E G
Sbjct: 688 ----PNSVGYYILLCNLYADAGKWDEVARVRKTMRENG 721

Length = 857

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.8 bits (97), Expect = 1e-05
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 179 KGCMPDVVCYTVMITSYIAAGELEKAQDLFDGM 211
           KG  PDVV Y  +I     AG +++A +L D M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 14/33 (42%), Positives = 20/33 (60%)

Query: 153 FTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV 185
           + TL+DGL +AG ++     F EM  +G  PDV
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 38.3 bits (90), Expect = 1e-04
 Identities = 11/34 (32%), Positives = 20/34 (58%)

Query: 220 VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP 253
           + TYN+++     AG  D A  +++EM++ G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

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

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 8/41 (19%), Positives = 21/41 (51%)

Query: 47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM 87
          +YN ++       + +    ++ +M   G  P++ TY+I++
Sbjct: 5  TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 27/111 (24%), Positives = 46/111 (41%)

Query: 5   GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLI 64
           G      +++ L+  C      +K +E +   K    RP  ++ NA++ AL    Q    
Sbjct: 679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKA 738

Query: 65  EWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDF 115
             V  +M   G  P+ +TY+I++ A  R    D    LL +    G  P+ 
Sbjct: 739 LEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNL 789

Length = 1060

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

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 59/269 (21%), Positives = 98/269 (36%), Gaps = 45/269 (16%)

Query: 62  KLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLD---QFHRLLDEMGRSGFSPDFHTY 118
           K +E  Y  M  +  +PD +T   V+ A   LG LD   + H L +   R G        
Sbjct: 372 KALE-TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAE---RKGLISYVVVA 427

Query: 119 NILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMAN 178
           N L+ +  K      AL + +++ E      V+ +T+++ GL           FF +M  
Sbjct: 428 NALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL 483

Query: 179 KGCMPDVVCYTVMITSYIAAGELE-----KAQDLFDGMITKGQLPN-------------- 219
               P+ V     +++    G L       A  L  G+   G LPN              
Sbjct: 484 T-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNY 542

Query: 220 -----------VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNA 268
                      V ++N ++ G+   GK   A  +   M   G NP+ + + +L+     +
Sbjct: 543 AWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS 602

Query: 269 GKLAEAHEVIRHMVEKGKYIHLVSKFKRY 297
           G + +  E    M EK     +    K Y
Sbjct: 603 GMVTQGLEYFHSMEEK---YSITPNLKHY 628

Length = 857

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

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 27/139 (19%), Positives = 50/139 (35%), Gaps = 39/139 (28%)

Query: 108 RSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD 167
              F+    TY+ L+              +  H++  GF+P                   
Sbjct: 116 GCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPD------------------ 157

Query: 168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMI 227
             +Y    M N+           ++  ++  G L  A+ LFD M  +    N+ ++ ++I
Sbjct: 158 --QY----MMNR-----------VLLMHVKCGMLIDARRLFDEMPER----NLASWGTII 196

Query: 228 RGFCMAGKFDEACTMMKEM 246
            G   AG + EA  + +EM
Sbjct: 197 GGLVDAGNYREAFALFREM 215

Length = 697

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

 Score = 42.1 bits (99), Expect = 3e-04
 Identities = 49/181 (27%), Positives = 70/181 (38%), Gaps = 18/181 (9%)

Query: 112 SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD--GLSRAGN--LD 167
           S   H  N  L  L    +   AL LL  M+E+        +  L       RA      
Sbjct: 48  SSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSR 107

Query: 168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMI 227
            C        + G    V     M++ ++  GEL  A  +F  M  +    ++F++N ++
Sbjct: 108 VCSRALSSHPSLG----VRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLV 159

Query: 228 RGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAG---KLAEAHEVIRHMVEK 284
            G+  AG FDEA  +   M   G  P+  VY T    LR  G    LA   EV  H+V  
Sbjct: 160 GGYAKAGYFDEALCLYHRMLWAGVRPD--VY-TFPCVLRTCGGIPDLARGREVHAHVVRF 216

Query: 285 G 285
           G
Sbjct: 217 G 217

Length = 857

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

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 56/304 (18%), Positives = 111/304 (36%), Gaps = 35/304 (11%)

Query: 12  TFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQM 71
           ++N+L+    + G   + +  + +      RP   ++  +L    GI        V+  +
Sbjct: 154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHV 213

Query: 72  SDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP 131
              G+  D+   N ++    + G +     + D M R     D  ++N ++    +  + 
Sbjct: 214 VRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGEC 269

Query: 132 LAALNLLNHMKEVGFDPSVLHFTTLM--------DGLSR-----------AGNLDACKYF 172
           L  L L   M+E+  DP ++  T+++        + L R           A ++  C   
Sbjct: 270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL 329

Query: 173 FDEMANKGCM------------PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV 220
                + G               D V +T MI+ Y   G  +KA + +  M      P+ 
Sbjct: 330 IQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE 389

Query: 221 FTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRH 280
            T  S++      G  D    + +  E +G     +V N L+        + +A EV  +
Sbjct: 390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHN 449

Query: 281 MVEK 284
           + EK
Sbjct: 450 IPEK 453

Length = 857

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

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 31/148 (20%), Positives = 56/148 (37%), Gaps = 30/148 (20%)

Query: 94  GKLDQFHRLLDEMGRSGFSPDFHTYNILL-------------HVLGKGDKPLAALNLLNH 140
           G+L+Q  +LL+ M       D   Y  L               V  +      +L +   
Sbjct: 65  GQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGV--- 121

Query: 141 MKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE 200
              +G          ++    R G L    Y F +M  +    D+  + V++  Y  AG 
Sbjct: 122 --RLG--------NAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGY 167

Query: 201 LEKAQDLFDGMITKGQLPNVFTYNSMIR 228
            ++A  L+  M+  G  P+V+T+  ++R
Sbjct: 168 FDEALCLYHRMLWAGVRPDVYTFPCVLR 195

Length = 857

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

 Score = 35.1 bits (82), Expect = 0.002
 Identities = 14/30 (46%), Positives = 19/30 (63%)

Query: 186 VCYTVMITSYIAAGELEKAQDLFDGMITKG 215
           V Y  +I+ Y  AG+LE+A +LF  M  KG
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 34.6 bits (81), Expect = 0.003
 Identities = 13/34 (38%), Positives = 21/34 (61%)

Query: 249 RGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMV 282
           +G  P+ + YNTL+  L  AG++ EA E++  M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 34.2 bits (80), Expect = 0.003
 Identities = 16/33 (48%), Positives = 21/33 (63%), Gaps = 2/33 (6%)

Query: 145 GFDPSVLHFTTLMDGLSRAGNLD-ACKYFFDEM 176
           G  P V+ + TL+DGL RAG +D A +   DEM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVE-LLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 34.4 bits (80), Expect = 0.003
 Identities = 15/35 (42%), Positives = 18/35 (51%)

Query: 116 HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV 150
            TYN L+  L K  +   AL L   MKE G +P V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	300
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
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.8
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.79
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.76
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.75
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.74
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.72
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.72
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.72
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.71
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.69
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.69
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.69
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.67
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
KOG1126	638	consensus DNA-binding cell division cycle control	99.65
PRK12370	553	invasion protein regulator; Provisional	99.65
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.63
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.63
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.61
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.61
PRK14574	822	hmsH outer membrane protein; Provisional	99.61
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.6
PRK14574	822	hmsH outer membrane protein; Provisional	99.6
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.57
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.56
PRK12370	553	invasion protein regulator; Provisional	99.55
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.54
KOG1126	638	consensus DNA-binding cell division cycle control	99.52
KOG1129	478	consensus TPR repeat-containing protein [General f	99.51
PF13041	50	PPR_2: PPR repeat family	99.51
KOG2076	895	consensus RNA polymerase III transcription factor	99.5
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.5
PF13041	50	PPR_2: PPR repeat family	99.5
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.49
KOG1129	478	consensus TPR repeat-containing protein [General f	99.46
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.46
KOG2003	840	consensus TPR repeat-containing protein [General f	99.43
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.43
PRK11189	296	lipoprotein NlpI; Provisional	99.42
KOG2076	895	consensus RNA polymerase III transcription factor	99.42
PRK11189	296	lipoprotein NlpI; Provisional	99.42
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.4
KOG2003	840	consensus TPR repeat-containing protein [General f	99.39
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.36
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.36
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.33
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.33
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.31
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.3
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.29
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.28
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.26
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.22
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.21
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.19
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.16
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.16
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.12
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.08
KOG1125	579	consensus TPR repeat-containing protein [General f	99.06
PLN02789	320	farnesyltranstransferase	99.04
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.0
PF12854	34	PPR_1: PPR repeat	99.0
PLN02789	320	farnesyltranstransferase	98.99
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.98
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.96
PF12854	34	PPR_1: PPR repeat	98.96
KOG1125	579	consensus TPR repeat-containing protein [General f	98.95
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.95
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.94
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.9
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.88
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.87
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.85
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.82
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.82
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.82
PRK04841	903	transcriptional regulator MalT; Provisional	98.81
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.8
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.79
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.79
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.79
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.79
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.78
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.77
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.77
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.77
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.73
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.72
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.71
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.71
PRK15359	144	type III secretion system chaperone protein SscB;	98.71
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.71
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.69
PRK15359	144	type III secretion system chaperone protein SscB;	98.69
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.69
PRK04841	903	transcriptional regulator MalT; Provisional	98.65
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.64
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.63
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.61
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.61
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.6
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.6
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.59
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.58
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.58
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.56
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.5
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.5
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.49
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.49
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.47
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.47
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.45
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.43
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.43
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.43
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.41
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.41
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.4
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.39
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.32
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.31
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.31
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.29
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.28
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.27
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.27
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.26
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.26
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.23
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.22
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.21
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.17
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.17
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.16
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.15
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.14
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.13
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.11
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.08
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.07
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.06
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.06
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.05
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.04
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.04
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.03
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.02
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.0
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.98
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.96
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.93
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.9
PF12688	120	TPR_5: Tetratrico peptide repeat	97.88
PF12688	120	TPR_5: Tetratrico peptide repeat	97.86
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.84
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.82
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.8
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.8
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.78
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.76
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.75
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.7
KOG0553	304	consensus TPR repeat-containing protein [General f	97.7
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.7
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.69
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.67
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.66
KOG0553	304	consensus TPR repeat-containing protein [General f	97.66
PRK10803	263	tol-pal system protein YbgF; Provisional	97.66
PRK10803	263	tol-pal system protein YbgF; Provisional	97.63
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.59
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.57
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.57
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.53
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.51
PRK15331	165	chaperone protein SicA; Provisional	97.47
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.45
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.45
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.4
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.38
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.36
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.35
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.34
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.33
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.32
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.31
PF13371	73	TPR_9: Tetratricopeptide repeat	97.25
PF13371	73	TPR_9: Tetratricopeptide repeat	97.24
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.19
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.16
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.15
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.13
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.13
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.0
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.95
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.94
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.92
PRK15331	165	chaperone protein SicA; Provisional	96.87
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.84
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.79
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.75
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.72
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.71
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.69
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.69
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.63
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.59
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.52
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.52
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.5
PF13512	142	TPR_18: Tetratricopeptide repeat	96.46
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.42
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.41
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.41
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.38
KOG3941	406	consensus Intermediate in Toll signal transduction	96.37
KOG4555	175	consensus TPR repeat-containing protein [Function	96.37
KOG3941	406	consensus Intermediate in Toll signal transduction	96.37
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.35
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.3
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.23
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.2
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.18
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.16
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.13
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.12
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.11
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.07
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.06
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.97
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.96
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.92
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.9
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.75
KOG4555	175	consensus TPR repeat-containing protein [Function	95.72
KOG1585	308	consensus Protein required for fusion of vesicles	95.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.62
PF13428	44	TPR_14: Tetratricopeptide repeat	95.61
PF13428	44	TPR_14: Tetratricopeptide repeat	95.57
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.57
KOG1585	308	consensus Protein required for fusion of vesicles	95.52
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.47
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.38
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.19
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.12
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.07
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.03
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.99
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.93
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.93
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.81
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.67
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.63
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.62
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.44
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.4
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.39
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.35
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.21
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.17
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.13
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.87
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.85
PRK11906	458	transcriptional regulator; Provisional	93.71
PF13431	34	TPR_17: Tetratricopeptide repeat	93.59
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.33
PRK11906	458	transcriptional regulator; Provisional	93.3
PF13512	142	TPR_18: Tetratricopeptide repeat	93.12
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.12
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.06
PF13431	34	TPR_17: Tetratricopeptide repeat	93.05
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.92
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.67
PF13929	292	mRNA_stabil: mRNA stabilisation	92.58
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.5
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.37
PRK09687	280	putative lyase; Provisional	92.32
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.32
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	92.29
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.07
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.0
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.93
PF13929	292	mRNA_stabil: mRNA stabilisation	91.9
COG3947	361	Response regulator containing CheY-like receiver a	91.82
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.82
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.8
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.61
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.4
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.28
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.27
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.17
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.13
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	90.66
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.43
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	90.35
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.21
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.2
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.18
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	89.83
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.55
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.54
KOG4234	271	consensus TPR repeat-containing protein [General f	89.51
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.33
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	89.19
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.05
PHA02875	413	ankyrin repeat protein; Provisional	88.9
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.88
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	88.81
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.72
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.37
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	88.35
KOG1586	288	consensus Protein required for fusion of vesicles	88.09
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	88.09
COG1747	711	Uncharacterized N-terminal domain of the transcrip	88.05
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.82
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.74
KOG1550	552	consensus Extracellular protein SEL-1 and related	87.55
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	87.38
KOG4648	536	consensus Uncharacterized conserved protein, conta	86.51
KOG2908	380	consensus 26S proteasome regulatory complex, subun	85.76
KOG4234	271	consensus TPR repeat-containing protein [General f	85.64
KOG1258	577	consensus mRNA processing protein [RNA processing	84.98
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.94
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	84.9
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.76
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	84.66
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	83.78
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.62
PRK09687	280	putative lyase; Provisional	83.39
PRK11619	644	lytic murein transglycosylase; Provisional	83.21
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	82.48
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	82.05
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	81.32
KOG2297	412	consensus Predicted translation factor, contains W	81.0
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	80.99
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	80.66
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	80.45
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.3

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-54  Score=379.61  Aligned_cols=296  Identities=21%  Similarity=0.332  Sum_probs=179.2

Q ss_pred             CccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 043969            1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         1 m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (300)
                      |++.|+.||..+|+.||.+|++.|+.++|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus       463 M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~  542 (1060)
T PLN03218        463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR  542 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCH
Confidence            34556666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHh--CCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           81 LTYNIVMCAKYRLGKLDQFHRLLDEMGR--SGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      .+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|++|.+.|++|+..+|+.+|.
T Consensus       543 vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~  622 (1060)
T PLN03218        543 VVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN  622 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHH
Confidence            6666666666666666666666666644  34556666666666666666666666666666666666666666666666


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH
Q 043969          159 GLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      +|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.+++++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       623 ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~ee  702 (1060)
T PLN03218        623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK  702 (1060)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            66666666666666666666666666666666666666666666666666666555555555566666666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC------hHHHHHHHhhh
Q 043969          239 ACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG------KYIHLVSKFKR  296 (300)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------~~~~l~~~~~~  296 (300)
                      |.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|      +|..++.++.+
T Consensus       703 A~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k  766 (1060)
T PLN03218        703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER  766 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            66666555555555555555555555555555555555555555555      44445544443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5e-54  Score=377.30  Aligned_cols=293  Identities=21%  Similarity=0.311  Sum_probs=285.6

Q ss_pred             CccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhh--CCCCC
Q 043969            1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSD--EGYAP   78 (300)
Q Consensus         1 m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~   78 (300)
                      |.+.|+.||..+|+.+|.+|++.|++++|+++|++|...++.||..+|+.+|.+|++.|++++|.++|++|.+  .|+.|
T Consensus       498 M~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~P  577 (1060)
T PLN03218        498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDP  577 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCC
Confidence            5678999999999999999999999999999999999999999999999999999999999999999999986  57899


Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      |..+|+.++.+|++.|++++|.++|+.|.+.|++|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.
T Consensus       578 D~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~  657 (1060)
T PLN03218        578 DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD  657 (1060)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH
Q 043969          159 GLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      +|++.|++++|.+++++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       658 a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~ee  737 (1060)
T PLN03218        658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK  737 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC------hHHHHHHH
Q 043969          239 ACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG------KYIHLVSK  293 (300)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------~~~~l~~~  293 (300)
                      |.++|++|.+.|+.||..+|+.++.+|.+.|++++|.+++++|.+.|      +|..++..
T Consensus       738 Alelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIgl  798 (1060)
T PLN03218        738 ALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL  798 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998      67777654

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

Probab=100.00  E-value=9.1e-49  Score=340.41  Aligned_cols=287  Identities=20%  Similarity=0.311  Sum_probs=239.8

Q ss_pred             CccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 043969            1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         1 m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (300)
                      |++.|+.||..+|+.|+..|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.|+.
T Consensus       149 m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~  224 (697)
T PLN03081        149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEP  224 (697)
T ss_pred             HHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCCh
Confidence            4567888888888888888888888888888888885    478888888888888888888888888888776665554


Q ss_pred             -----------------------------------hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           81 -----------------------------------LTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        81 -----------------------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                                                         .+|+.++.+|++.|++++|.++|+.|.    ++|..+|+.++.+|
T Consensus       225 ~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y  300 (697)
T PLN03081        225 RTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGY  300 (697)
T ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHH
Confidence                                               445667777888888888888888775    35788888888888


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQ  205 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  205 (300)
                      ++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.+|.+|++.|++++|.
T Consensus       301 ~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~  380 (697)
T PLN03081        301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDAR  380 (697)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHH
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-
Q 043969          206 DLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK-  284 (300)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  284 (300)
                      ++|++|.+    ||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|+.++|.++|+.|.+. 
T Consensus       381 ~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~  456 (697)
T PLN03081        381 NVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENH  456 (697)
T ss_pred             HHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Confidence            88888753    6888888888888888888888888888888888888888888888888888888888888888763 


Q ss_pred             C------hHHHHHHHhhhhhc
Q 043969          285 G------KYIHLVSKFKRYKR  299 (300)
Q Consensus       285 ~------~~~~l~~~~~~~~~  299 (300)
                      |      +|..++..+++.++
T Consensus       457 g~~p~~~~y~~li~~l~r~G~  477 (697)
T PLN03081        457 RIKPRAMHYACMIELLGREGL  477 (697)
T ss_pred             CCCCCccchHhHHHHHHhcCC
Confidence            4      77888888777653

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

Probab=100.00  E-value=1.7e-47  Score=332.47  Aligned_cols=283  Identities=19%  Similarity=0.265  Sum_probs=227.9

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCC-----------------------------------CcCHHHHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNF-----------------------------------RPFKNSYNAIL   52 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----------------------------------~~~~~~~~~l~   52 (300)
                      ||..+||+++.+|++.|++++|+++|++|...|+                                   .||..+|++++
T Consensus       187 ~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li  266 (697)
T PLN03081        187 RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALI  266 (697)
T ss_pred             CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHH
Confidence            5666666666666666666666666666654444                                   44455567777


Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChH
Q 043969           53 HALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPL  132 (300)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (300)
                      .+|++.|++++|.++|++|.+    +|..+||.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++
T Consensus       267 ~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~  342 (697)
T PLN03081        267 DMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLE  342 (697)
T ss_pred             HHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchH
Confidence            888888888888888888753    4788888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          133 AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      +|.+++..|.+.|++|+..+++.++.+|++.|++++|.++|++|.+    ||..+||.+|.+|++.|+.++|.++|++|.
T Consensus       343 ~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~  418 (697)
T PLN03081        343 HAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMI  418 (697)
T ss_pred             HHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888863    688888888888888888888888888888


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---hHH
Q 043969          213 TKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES-RGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG---KYI  288 (300)
Q Consensus       213 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~  288 (300)
                      +.|+.||..||+.++.+|++.|++++|.++|+.|.+ .|+.|+..+|+.++.+|.+.|++++|.+++++|.-..   .|.
T Consensus       419 ~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~  498 (697)
T PLN03081        419 AEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWA  498 (697)
T ss_pred             HhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHH
Confidence            888888888888888888888888888888888875 5888888888888888888888888888888764322   677


Q ss_pred             HHHHHhhhhh
Q 043969          289 HLVSKFKRYK  298 (300)
Q Consensus       289 ~l~~~~~~~~  298 (300)
                      +++.+++..+
T Consensus       499 ~Ll~a~~~~g  508 (697)
T PLN03081        499 ALLTACRIHK  508 (697)
T ss_pred             HHHHHHHHcC
Confidence            7777765543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.4e-47  Score=335.22  Aligned_cols=290  Identities=19%  Similarity=0.258  Sum_probs=242.3

Q ss_pred             ccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh
Q 043969            2 IENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDIL   81 (300)
Q Consensus         2 ~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (300)
                      +..|+.||..||+.++++|++.+++..+.+++..+...|+.|+..+|+.++.+|++.|+++.|..+|++|.    .||..
T Consensus       179 ~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~  254 (857)
T PLN03077        179 LWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCI  254 (857)
T ss_pred             HHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcc
Confidence            34455566666665555555555555555555555555666666666777777788888888888888876    35778


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      +||.++.+|++.|++++|.++|++|...|+.||..||+.++.+|.+.|+.+.|.+++..+.+.|+.||..+|+.++.+|+
T Consensus       255 s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~  334 (857)
T PLN03077        255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYL  334 (857)
T ss_pred             hhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHH
Confidence            88888888888888888888888888888889999999999999989999999999999988888999999999999999


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACT  241 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (300)
                      +.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+
T Consensus       335 k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~  410 (857)
T PLN03077        335 SLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVK  410 (857)
T ss_pred             hcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHH
Confidence            9999999999999886    468889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--hHHHHHHHhhhhhc
Q 043969          242 MMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG--KYIHLVSKFKRYKR  299 (300)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~l~~~~~~~~~  299 (300)
                      +++.|.+.|+.|+..+++.++.+|.+.|++++|.++|++|.+.+  .|+.++..+.+.++
T Consensus       411 l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~  470 (857)
T PLN03077        411 LHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNR  470 (857)
T ss_pred             HHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999998877  88888888876554

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.5e-46  Score=331.27  Aligned_cols=288  Identities=18%  Similarity=0.236  Sum_probs=169.9

Q ss_pred             cCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhh
Q 043969            3 ENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILT   82 (300)
Q Consensus         3 ~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (300)
                      +.|+.||..||+.++.+|++.|+.+.+.+++..+...|..||..+|+.++.+|++.|++++|.++|++|.    .||..+
T Consensus       281 ~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s  356 (857)
T PLN03077        281 ELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVS  356 (857)
T ss_pred             HcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeee
Confidence            3444444444444444444444444444444444444444444455555555555555555555555443    234455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR  162 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (300)
                      |+.++.+|.+.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.++.+|++
T Consensus       357 ~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k  436 (857)
T PLN03077        357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK  436 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555556666666666666666


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-------------------------
Q 043969          163 AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL-------------------------  217 (300)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-------------------------  217 (300)
                      .|++++|.++|++|.+    +|..+|+.+|.+|++.|+.++|..+|++|.. ++.                         
T Consensus       437 ~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i  511 (857)
T PLN03077        437 CKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEI  511 (857)
T ss_pred             cCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHH
Confidence            6666666666666643    2344444444444444444444444444432 122                         


Q ss_pred             ----------------------------------------CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHH
Q 043969          218 ----------------------------------------PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLV  257 (300)
Q Consensus       218 ----------------------------------------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  257 (300)
                                                              ||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..|
T Consensus       512 ~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T  591 (857)
T PLN03077        512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT  591 (857)
T ss_pred             HHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCccc
Confidence                                                    3445566777777777778888888888888788888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH-HcC------hHHHHHHHhhhhhc
Q 043969          258 YNTLVSNLRNAGKLAEAHEVIRHMV-EKG------KYIHLVSKFKRYKR  299 (300)
Q Consensus       258 ~~~li~~~~~~g~~~~a~~~~~~~~-~~~------~~~~l~~~~~~~~~  299 (300)
                      |+.++.+|.+.|++++|.++|++|. +.|      +|..++..+.+.++
T Consensus       592 ~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~  640 (857)
T PLN03077        592 FISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGK  640 (857)
T ss_pred             HHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCC
Confidence            8888888888888888888888887 344      67777777776553

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=9.1e-22  Score=161.40  Aligned_cols=259  Identities=12%  Similarity=0.100  Sum_probs=127.8

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC---HhhHHHHHHHHHhcCCHH
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD---ILTYNIVMCAKYRLGKLD   97 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~   97 (300)
                      ...|++++|+..|.++...+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..+...+.+.|+++
T Consensus        46 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            34455555555555555442 22233555555555555555555555555554321111   133444555555555555


Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc----HhhHHHHHHHHHhCCCHHHHHHHH
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS----VLHFTTLMDGLSRAGNLDACKYFF  173 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~  173 (300)
                      +|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|...+
T Consensus       125 ~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        125 RAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            5555555555432 23444555555555555555555555555554332111    112334444555555555555555


Q ss_pred             HHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC
Q 043969          174 DEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP  253 (300)
Q Consensus       174 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (300)
                      +++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|.+.++++.+.  .|
T Consensus       204 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p  280 (389)
T PRK11788        204 KKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YP  280 (389)
T ss_pred             HHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC
Confidence            5554432 11233444455555555555555555555554322212334455555555555555555555555543  23


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          254 NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       254 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      +...+..++..+.+.|++++|..+++++.+.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            4344455555555555555555555555544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=2e-21  Score=159.39  Aligned_cols=273  Identities=13%  Similarity=0.061  Sum_probs=227.7

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC---HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPF---KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTY   83 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (300)
                      |.+..++..+...+...|++++|...++.+...+..++   ...+..+...+...|+++.|..+|+++.+.. +++..++
T Consensus        66 p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~  144 (389)
T PRK11788         66 PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGAL  144 (389)
T ss_pred             cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHH
Confidence            34566888899999999999999999999877532222   2467889999999999999999999998864 3467889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD----FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|...++++.+.. +.+...+..+...
T Consensus       145 ~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~  223 (389)
T PRK11788        145 QQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDL  223 (389)
T ss_pred             HHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHH
Confidence            9999999999999999999999987652222    1235567778889999999999999998864 4456678888899


Q ss_pred             HHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 043969          160 LSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      +.+.|++++|...++++.+.+......+++.++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|
T Consensus       224 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A  301 (389)
T PRK11788        224 ALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAA  301 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHH
Confidence            9999999999999999987643323467889999999999999999999999886  46666778899999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHcC
Q 043969          240 CTMMKEMESRGCNPNFLVYNTLVSNLRN---AGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~  285 (300)
                      ..+++++.+.  .|+..++..++..+..   .|+.+++..+++++.+++
T Consensus       302 ~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~  348 (389)
T PRK11788        302 QALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQ  348 (389)
T ss_pred             HHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHH
Confidence            9999999875  6888899888887664   568999999999999877

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

Probab=99.90  E-value=8.2e-20  Score=165.19  Aligned_cols=268  Identities=13%  Similarity=0.067  Sum_probs=138.0

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...|..+...+.+.|++++|.+.++++.... +.+...+..+...+...|++++|..+++++.+..+ .+..++..+..
T Consensus       600 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~  677 (899)
T TIGR02917       600 SPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKP-DNTEAQIGLAQ  677 (899)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            34444444444555555555555554444332 22233444444444455555555555554444321 13444444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDA  168 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (300)
                      .+...|++++|.++++.+.... +.+...+..+...+...|++++|.+.++.+...+  |+..++..+..++.+.|++++
T Consensus       678 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~  754 (899)
T TIGR02917       678 LLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAE  754 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHH
Confidence            5555555555555555544443 3344444555555555555555555555555432  223444445555555555555


Q ss_pred             HHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          169 CKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      |...++.+.+.. +.+...+..+...+...|++++|...|+++.+.. +++...++.+...+...|+ .+|+..+++..+
T Consensus       755 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~  831 (899)
T TIGR02917       755 AVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALK  831 (899)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHh
Confidence            555555555432 2344455555555566666666666666665543 2345555555555555555 556666555554


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          249 RGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       249 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .. +-+...+..+..++...|++++|.++++++++.+
T Consensus       832 ~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       832 LA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             hC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            31 2233445556666677777777777777777654

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

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

Probab=99.90  E-value=1.9e-19  Score=162.84  Aligned_cols=273  Identities=12%  Similarity=0.059  Sum_probs=174.3

Q ss_pred             CCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043969            6 FPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNI   85 (300)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (300)
                      .|+++.++..+...+...|++++|.+.|.++...+ +.+...+..+...+...|++++|.+.++++.+..+. +..++..
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~  538 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPK-NLRAILA  538 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHH
Confidence            34566677777777777777777777777766543 233446666777777777777777777777765432 5666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      +...+.+.|+.++|...++++...+ +.+...+..+...+...|++++|..+++.+.+. .+.+...|..+..++...|+
T Consensus       539 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~  616 (899)
T TIGR02917       539 LAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGD  616 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCC
Confidence            7777777777777777777765553 345555666666677777777777777776654 24455666677777777777


Q ss_pred             HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          166 LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      +++|...|+.+.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+..++..++..+...|++++|.++++.
T Consensus       617 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  694 (899)
T TIGR02917       617 LNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKS  694 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777777666542 2244556666666666777777777776666542 22455666666666666666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          246 MESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       246 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +.+.+ +.+...+..+...+...|++++|.+.++++.+.+
T Consensus       695 ~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  733 (899)
T TIGR02917       695 LQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA  733 (899)
T ss_pred             HHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            65542 3344555555556666666666666666665543

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=8.4e-17  Score=138.95  Aligned_cols=268  Identities=12%  Similarity=0.017  Sum_probs=145.0

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ...+..+...+.+.|++++|.+.+++..... +.+...+..+...+...|++++|...++.+....+. +...+..+ ..
T Consensus       110 ~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~  186 (656)
T PRK15174        110 PEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LS  186 (656)
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HH
Confidence            3444445555555555555555555554432 222334555555555555555555555555444322 22222222 22


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHH-
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDA-  168 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  168 (300)
                      +...|++++|...++.+.+..-.++...+..+...+...|++++|+..+++..+.. +.+...+..+...+...|++++ 
T Consensus       187 l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA  265 (656)
T PRK15174        187 FLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREA  265 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhh
Confidence            44555666666555555443211223333334455556666666666666665542 3344555556666666666664 


Q ss_pred             ---HHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          169 ---CKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       169 ---a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                         |...|+...+.. +.+...+..+...+...|++++|...+++..+.... +...+..+..++.+.|++++|...+++
T Consensus       266 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~  343 (656)
T PRK15174        266 KLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQ  343 (656)
T ss_pred             HHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence               566666665542 223445666666666677777777777766665322 345555666666677777777777766


Q ss_pred             HHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          246 MESRGCNPNFL-VYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       246 ~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +...  .|+.. .+..+..++...|+.++|...|+++.+..
T Consensus       344 al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        344 LARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            6654  23332 23333455666777777777777766553

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=7.8e-17  Score=139.18  Aligned_cols=271  Identities=11%  Similarity=0.022  Sum_probs=215.9

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      -+...+..++......|++++|.+.++++.... +.+...+..+...+...|++++|...++++.+..+ .+...+..+.
T Consensus        74 ~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P-~~~~a~~~la  151 (656)
T PRK15174         74 NGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFS-GNSQIFALHL  151 (656)
T ss_pred             CchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHH
Confidence            345556666777778999999999999988764 34455788888999999999999999999988642 3677888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      ..+...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+.+....++......+...+...|+++
T Consensus       152 ~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~  229 (656)
T PRK15174        152 RTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQ  229 (656)
T ss_pred             HHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHH
Confidence            99999999999999999886654 2333444333 347788999999999999877643344445556677888999999


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEK----AQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM  243 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (300)
                      +|...++...... +.+...+..+...+...|++++    |...|++..+... .+...+..+...+...|++++|...+
T Consensus       230 eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~l  307 (656)
T PRK15174        230 EAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS-DNVRIVTLYADALIRTGQNEKAIPLL  307 (656)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999998764 3356677888899999999986    8999999988643 36788999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          244 KEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       244 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ++..+.. +.+...+..+..++.+.|++++|.+.++++.+.+
T Consensus       308 ~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        308 QQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999863 3345667778889999999999999999999765

>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=99.80  E-value=7.9e-16  Score=133.07  Aligned_cols=257  Identities=12%  Similarity=-0.009  Sum_probs=207.9

Q ss_pred             ccHHHHHHHHHHhhhcC-CCc-CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043969           24 GLARKVVERFIKSKLFN-FRP-FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHR  101 (300)
Q Consensus        24 ~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (300)
                      +++++|.+.|++....+ ..| ....|+.+...+...|++++|+..+++.++..+. ....|..+...+...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHH
Confidence            57889999999887654 234 3447888888999999999999999999887432 46688888899999999999999


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 043969          102 LLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC  181 (300)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (300)
                      .+++..+.. +.+..+|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|...|+...+.. 
T Consensus       387 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-  463 (615)
T TIGR00990       387 DFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-  463 (615)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            999998764 4567889999999999999999999999999874 4456778888899999999999999999988752 


Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH
Q 043969          182 MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV------FTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF  255 (300)
Q Consensus       182 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (300)
                      +.+...++.+...+...|++++|+..|++..+.....+.      ..++.....+...|++++|.+++++..+.. +.+.
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~  542 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECD  542 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcH
Confidence            335678899999999999999999999998875322111      112223333445799999999999988763 2344


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          256 LVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       256 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..+..+...+.+.|++++|.+.|++..+..
T Consensus       543 ~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       543 IAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            578889999999999999999999987654

>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=99.79  E-value=3e-15  Score=129.51  Aligned_cols=188  Identities=16%  Similarity=0.098  Sum_probs=144.6

Q ss_pred             CCHHHHHHHHHHHHhCC-C-CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHH
Q 043969           94 GKLDQFHRLLDEMGRSG-F-SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKY  171 (300)
Q Consensus        94 ~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (300)
                      +++++|.+.|+.....+ . +.....+..+...+...|++++|+..+++..+.. +.....|..+...+...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            35666666666666543 1 2234456677777788889999999998888753 3345677788888888999999999


Q ss_pred             HHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 043969          172 FFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGC  251 (300)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (300)
                      .|+...+.. +.+...|..+...+...|++++|...|++..+... .+...+..+..++.+.|++++|+..+++..+. .
T Consensus       387 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~  463 (615)
T TIGR00990       387 DFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-F  463 (615)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C
Confidence            998887763 33567788888888999999999999999887643 35677888888899999999999999988875 2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          252 NPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       252 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +.+...+..+..++...|++++|.+.|++.++..
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            3356788888888999999999999999988753

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

Probab=99.78  E-value=1.5e-18  Score=135.51  Aligned_cols=267  Identities=13%  Similarity=0.120  Sum_probs=113.2

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcC-CCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFN-FRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      +...+ .+...+.+.|++++|++++.+..... .+.+...|..+...+...++++.|...++++.+.+.. ++..+..++
T Consensus         8 ~~~~l-~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~   85 (280)
T PF13429_consen    8 SEEAL-RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLI   85 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccc
Confidence            33344 45778889999999999996644332 2334446666777777889999999999999987644 666777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcHhhHHHHHHHHHhCCCH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG-FDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      .. ...+++++|.+++....+.  .+++..+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.
T Consensus        86 ~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~  162 (280)
T PF13429_consen   86 QL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP  162 (280)
T ss_dssp             -----------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH
T ss_pred             cc-ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            77 7899999999999877655  3567778888899999999999999999987542 345777888899999999999


Q ss_pred             HHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          167 DACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      ++|.+.++...+.. +.|......++..+...|+.+++.+++....+.. +.|...+..+..+|...|+.++|...+++.
T Consensus       163 ~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~  240 (280)
T PF13429_consen  163 DKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKA  240 (280)
T ss_dssp             HHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccc
Confidence            99999999998873 2257778889999999999999999998887763 345667889999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          247 ESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       247 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      .+.. +.|......+..++...|+.++|.++.+++.+
T Consensus       241 ~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  241 LKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             cccc-cccccccccccccccccccccccccccccccc
Confidence            8852 44788888999999999999999999887754

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.76  E-value=3.9e-15  Score=115.46  Aligned_cols=276  Identities=16%  Similarity=0.299  Sum_probs=199.9

Q ss_pred             CCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043969            6 FPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNI   85 (300)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (300)
                      .|-+..++..+|.+.++....+.|.+++.+......+.+..+||.+|.+-.-.    ...++..+|......||..|+|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHH
Confidence            45678899999999999999999999999988888899999999999876443    33788999999999999999999


Q ss_pred             HHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHH-HHHHHHHHHHc----CCC----CcHhh
Q 043969           86 VMCAKYRLGKLDQ----FHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLA-ALNLLNHMKEV----GFD----PSVLH  152 (300)
Q Consensus        86 l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~----~~~~~  152 (300)
                      ++++..+.|+++.    |.+++.+|.+.|+.|...+|..+|..+.+.+++.+ +..++.++...    .+.    -+...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            9999999998764    57788999999999999999999999999888755 45555555432    222    24455


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhC----CCCCc---cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANK----GCMPD---VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNS  225 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  225 (300)
                      |...+..|.+..+.+.|..+..-+...    .+.|+   ..-|..+....|+....+.-...|..|+-.-.-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            677788888888888888776655432    11222   12344555566666666666666666665545556666666


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCC-------------------CCC---------------------------------
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESRG-------------------CNP---------------------------------  253 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~-------------------~~~---------------------------------  253 (300)
                      ++++..-.+.++-.-++|.+++..|                   ..|                                 
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~  518 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ  518 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc
Confidence            6666655565555555555444333                   111                                 


Q ss_pred             --CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          254 --NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       254 --~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                        +....+.+.-.+.+.|..++|.+++..+.+++
T Consensus       519 ~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~  552 (625)
T KOG4422|consen  519 DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKH  552 (625)
T ss_pred             cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcC
Confidence              22234445555678899999999999887666

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

Probab=99.76  E-value=3.7e-16  Score=126.29  Aligned_cols=264  Identities=14%  Similarity=0.148  Sum_probs=220.0

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC-HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPF-KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ..|+.|...+-..|+...|+..|++..+.  .|+ ...|..|...|...+.++.|...|.+.....+. ....+..+...
T Consensus       219 iawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn-~A~a~gNla~i  295 (966)
T KOG4626|consen  219 IAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN-HAVAHGNLACI  295 (966)
T ss_pred             eeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc-chhhccceEEE
Confidence            45677777778889999999999998776  444 348889999999999999999999988876432 56778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC-HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHH
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPD-FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDA  168 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (300)
                      |...|.++.|+..+++..+.  .|+ +..|+.|..++-..|+..+|.+.|.+..... +......+.|...|...|.++.
T Consensus       296 YyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             EeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchH
Confidence            99999999999999998876  344 6789999999999999999999999988863 4455778889999999999999


Q ss_pred             HHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          169 CKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN-VFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      |.++|....+.. +--....+.|...|-+.|++++|+..|++...  +.|+ ...|+.+...|-..|+...|.+.+.+.+
T Consensus       373 A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI  449 (966)
T KOG4626|consen  373 ATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAI  449 (966)
T ss_pred             HHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHH
Confidence            999999887752 22345788899999999999999999999887  4555 5688999999999999999999999888


Q ss_pred             HCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          248 SRGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       248 ~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..  .|. ...++.|...|...|++.+|.+-++..++-.
T Consensus       450 ~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  450 QI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             hc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            74  555 4678889999999999999999999988765

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.75  E-value=3.9e-14  Score=115.76  Aligned_cols=254  Identities=10%  Similarity=0.082  Sum_probs=172.2

Q ss_pred             HhhccccHHHHHHHHHHhhhcCCCcCHHHHH--HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           19 TCGEVGLARKVVERFIKSKLFNFRPFKNSYN--AILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      ...+.|+++.+.+.+.++.+.  .|+.....  .....+...|+++.|...++++.+..+. ++.....+...|.+.|++
T Consensus       127 aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw  203 (398)
T PRK10747        127 AAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAW  203 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhH
Confidence            335667777777777776553  34432222  2345666677777777777777666533 566666677777777777


Q ss_pred             HHHHHHHHHHHhCCCCCCH-------hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDF-------HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDAC  169 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (300)
                      ++|.+++..+.+.+..++.       .+|..++.......+.+...++++.+.+. .+.++.....+...+...|+.++|
T Consensus       204 ~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A  282 (398)
T PRK10747        204 SSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTA  282 (398)
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHH
Confidence            7777777777666533221       12222233333334445555555555433 244666677788888899999999


Q ss_pred             HHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          170 KYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ..+++...+.  .|+...  .++.+....++.+++.+..+...+... -|......+...|.+.+++++|.+.|+...+.
T Consensus       283 ~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~  357 (398)
T PRK10747        283 QQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ  357 (398)
T ss_pred             HHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9999888774  344421  223333456889999999988887643 36677888899999999999999999999875


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          250 GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       250 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                        .|+...+..+...+.+.|+.++|.+++++...
T Consensus       358 --~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        358 --RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             --CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence              68888888899999999999999999887653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.74  E-value=4e-14  Score=130.36  Aligned_cols=128  Identities=16%  Similarity=0.169  Sum_probs=61.0

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM  232 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  232 (300)
                      +..+...+.+.|++++|...|+...+.. +.+...+..++..+...|++++|++.++.+.+... .+..++..+..++..
T Consensus       606 ~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p-~~~~~~~~la~~~~~  683 (1157)
T PRK11447        606 DLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATAN-DSLNTQRRVALAWAA  683 (1157)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC-CChHHHHHHHHHHHh
Confidence            3344444555555555555555554432 22344455555555555555555555555443311 133344444555555


Q ss_pred             cCCHHHHHHHHHHHHHCCC--CC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          233 AGKFDEACTMMKEMESRGC--NP---NFLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~--~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      .|++++|.++++++....-  +|   +...+..+...+...|++++|++.|++..
T Consensus       684 ~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        684 LGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             CCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555555555554311  11   11233334444555555555555555554

>TIGR00540 hemY_coli hemY protein

Probab=99.72  E-value=7.8e-14  Score=114.59  Aligned_cols=260  Identities=12%  Similarity=0.056  Sum_probs=176.7

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCH--HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFK--NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG   94 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (300)
                      .....+.|+.+.+.+.+.+..+..  |+.  ..-......+...|+++.|...++.+.+..+. +......+...+...|
T Consensus       125 A~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~  201 (409)
T TIGR00540       125 AEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSG  201 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHh
Confidence            455667788888888888765542  333  23333466777788888888888888877543 6667777888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHH-HHHHHH---hcCCChHHHHHHHHHHHHcC---CCCcHhhHHHHHHHHHhCCCHH
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYN-ILLHVL---GKGDKPLAALNLLNHMKEVG---FDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      ++++|.+.+..+.+.+.. +...+. .-..++   ...+..+++.+.+..+.+..   .+.+...+..+...+...|+.+
T Consensus       202 d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~  280 (409)
T TIGR00540       202 AWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHD  280 (409)
T ss_pred             hHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChH
Confidence            888888888888877643 333231 111111   22222222333444444331   1236677788888899999999


Q ss_pred             HHHHHHHHHHhCCCCCccccH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCCHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCY---TVMITSYIAAGELEKAQDLFDGMITKGQLPNV--FTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                      +|..++++..+.  .|+....   ..........++.+.+.+.++...+... -|.  .....+...+.+.|++++|.+.
T Consensus       281 ~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p-~~~~~~ll~sLg~l~~~~~~~~~A~~~  357 (409)
T TIGR00540       281 SAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD-DKPKCCINRALGQLLMKHGEFIEAADA  357 (409)
T ss_pred             HHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHHHcccHHHHHHH
Confidence            999999998876  3444321   1122222345778888888888776522 234  5667888999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          243 MKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      |+........|+...+..+...+.+.|+.++|.+++++...
T Consensus       358 le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       358 FKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99644444578888888999999999999999999987643

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.72  E-value=9.6e-14  Score=127.88  Aligned_cols=262  Identities=11%  Similarity=0.035  Sum_probs=185.4

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH----------
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV----------   86 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----------   86 (300)
                      ...+.+.|++++|.+.|++..... +.+...+..+...+...|++++|++.|+++.+.... +...+..+          
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~  435 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPE  435 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHH
Confidence            345667889999999999887764 344557777888889999999999999988876422 23333222          


Q ss_pred             --------------------------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHH
Q 043969           87 --------------------------------MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAA  134 (300)
Q Consensus        87 --------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (300)
                                                      ...+...|++++|++.+++..+.. +-+...+..+...|.+.|++++|
T Consensus       436 ~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        436 KALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence                                            233445788888888888887764 34566777888888999999999


Q ss_pred             HHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC-----------------------------------
Q 043969          135 LNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK-----------------------------------  179 (300)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------------------------  179 (300)
                      ...++++.+.. +.+...+..+...+...++.++|...++.+...                                   
T Consensus       515 ~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        515 DALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            99999887653 223333333333334444444444443322110                                   


Q ss_pred             ----CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH
Q 043969          180 ----GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF  255 (300)
Q Consensus       180 ----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (300)
                          ..+.+...+..+...+.+.|++++|+..|++..+... .+...+..++..+...|++++|.+.++...+.. +.+.
T Consensus       594 ~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~  671 (1157)
T PRK11447        594 ALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREP-GNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSL  671 (1157)
T ss_pred             HHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCCh
Confidence                1233455667788888899999999999999988743 367888899999999999999999999877642 2244


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          256 LVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       256 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..+..+..++...|++++|.++++++++.
T Consensus       672 ~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        672 NTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            56667778888999999999999998875

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.72  E-value=1.2e-13  Score=122.97  Aligned_cols=263  Identities=11%  Similarity=0.027  Sum_probs=147.3

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...|..+...+.. ++..+|+..+.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            44555555555554 5666666655555443  344333333344445666677776666665443  233334444555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDA  168 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (300)
                      ++.+.|+.++|...++...+.. +.+...+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            6666667666666666666543 222223333333344456677777666666654  3445566666666666777777


Q ss_pred             HHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          169 CKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      |...++...... +.+...++.+..++...|++++|+..+++..+... -+...+..+..++...|++++|...+++..+
T Consensus       628 A~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        628 AVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            777666666552 22344555566666666677777776666666532 2455666666666666777777766666665


Q ss_pred             CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          249 RGCNPNF-LVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       249 ~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      .  .|+. .+.........+..+++.|.+-+++...
T Consensus       706 l--~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        706 D--IDNQALITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             c--CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            4  2332 3333444444555555555555555443

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

Probab=99.71  E-value=7.9e-15  Score=118.80  Aligned_cols=266  Identities=15%  Similarity=0.148  Sum_probs=184.3

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhH-----
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTY-----   83 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-----   83 (300)
                      -..+|..+...+...|++++|+.+++.+.+.. +-.+..|..+..++...|+.+.|.+.|.+.++.  .|+....     
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lg  191 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLG  191 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcchh
Confidence            45788889999999999999999999988763 334558999999999999999999999888876  3433322     


Q ss_pred             ------------------------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HhHHHHHHHHHhcCCChH
Q 043969           84 ------------------------------NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD-FHTYNILLHVLGKGDKPL  132 (300)
Q Consensus        84 ------------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  132 (300)
                                                    +.|...+...|+...|++.|++..+.  .|+ ...|-.|...|...+.++
T Consensus       192 nLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  192 NLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcch
Confidence                                          22222222334445555555554443  222 345555555666666666


Q ss_pred             HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc-cccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          133 AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD-VVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      .|+..|.+..... +.....+..+...|..+|+++.|++.|++..+.  .|+ ...|+.|..++-..|++.+|.+.|.+.
T Consensus       270 ~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  270 RAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             HHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            6666655555431 223345555556666777777888877777765  343 457888888888888888888888887


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          212 ITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       212 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..... ....+.+.|...|...|.+++|..+|....+-  .|. ...++.|...|.+.|++++|..-+++.+.-.
T Consensus       347 L~l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~  418 (966)
T KOG4626|consen  347 LRLCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIK  418 (966)
T ss_pred             HHhCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcC
Confidence            77532 24567778888888888888888888877763  444 3567778888888888888888888887755

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.69  E-value=1.2e-13  Score=107.36  Aligned_cols=238  Identities=18%  Similarity=0.246  Sum_probs=190.5

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +..+|.++|.++++--..+.|.+++++......+.+..+||.+|.+-.-..+    .+++.+|....+.||..|+|++++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHH
Confidence            4458999999999999999999999999888778899999999976443322    678889999999999999999999


Q ss_pred             HHhcCCChHH----HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHH-HHHHHHHHHhC----CCCC----ccccHHH
Q 043969          124 VLGKGDKPLA----ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDA-CKYFFDEMANK----GCMP----DVVCYTV  190 (300)
Q Consensus       124 ~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~~----~~~~~~~  190 (300)
                      +..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++...    .++|    +...|..
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            9999998765    56788899999999999999999999988888754 44444444332    2233    3345666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC----CCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          191 MITSYIAAGELEKAQDLFDGMITK----GQLPN---VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       191 li~~~~~~~~~~~a~~~~~~~~~~----~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      .+..|.+..+.+-|.++-.-+...    -+.|+   ..-|..+....++....+.....++.|.-.-+-|+..+...+++
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lr  441 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLR  441 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHH
Confidence            777788888888888876654432    12232   23467778888888899999999999998777889999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 043969          264 NLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +..-.|.++-..+++.+++..|
T Consensus       442 A~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  442 ALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHhhcCcchhHHHHHHHHHHhh
Confidence            9999999999999999999998

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.69  E-value=3.6e-13  Score=119.85  Aligned_cols=232  Identities=10%  Similarity=0.042  Sum_probs=188.8

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +...|..+..++.. ++.++|...+.+.....  |+......+...+...|++++|...++++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            55678888887776 88889999888887763  55444444455557899999999999998665  456666777778


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHH
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEK  203 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  203 (300)
                      .+.+.|++++|...+++..+.. +.....+..+.......|++++|...++...+.  .|+...+..+..++.+.|++++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            8899999999999999998864 333333444444555679999999999999876  4678889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          204 AQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      |...+++..+... .+...++.+..++...|++++|+..+++..+.. +-+...+..+..++...|++++|+..+++.++
T Consensus       628 A~~~l~~AL~l~P-d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        628 AVSDLRAALELEP-NNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            9999999998743 367788889999999999999999999999862 33567888999999999999999999999987


Q ss_pred             cC
Q 043969          284 KG  285 (300)
Q Consensus       284 ~~  285 (300)
                      ..
T Consensus       706 l~  707 (987)
T PRK09782        706 DI  707 (987)
T ss_pred             cC
Confidence            65

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.69  E-value=1.3e-12  Score=115.52  Aligned_cols=273  Identities=11%  Similarity=0.094  Sum_probs=159.0

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      .+...+..+...+.+.|++++|.+.+++..... +.+...+..+...+...|++++|...++++.+..+ .+.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P-~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAP-DKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHH
Confidence            344457777777888888888888888876653 33445666777777888888888888888877632 2455 77777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHH----------------------------
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLN----------------------------  139 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------------------------  139 (300)
                      .++...|+.++|+..++++.+.. +.+...+..+..++...+..++|+..++                            
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~  202 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPT  202 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccc
Confidence            77778888888888888877663 3344444555555555555444443333                            


Q ss_pred             ------------------HHHHc-CCCCcHh-hHH----HHHHHHHhCCCHHHHHHHHHHHHhCCCC-CccccHHHHHHH
Q 043969          140 ------------------HMKEV-GFDPSVL-HFT----TLMDGLSRAGNLDACKYFFDEMANKGCM-PDVVCYTVMITS  194 (300)
Q Consensus       140 ------------------~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~  194 (300)
                                        .+.+. ...|+.. .+.    ..+..+...|++++|+..|+.+.+.+.. |+. .-..+..+
T Consensus       203 ~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~  281 (765)
T PRK10049        203 RSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASA  281 (765)
T ss_pred             cChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHH
Confidence                              22221 0111110 110    0122344556777777777777665321 211 11224556


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-----------CCCCH---HH
Q 043969          195 YIAAGELEKAQDLFDGMITKGQLP---NVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-----------CNPNF---LV  257 (300)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------~~~~~---~~  257 (300)
                      +...|++++|+..|+++.+.....   .......+..++...|++++|.++++.+....           -.|+.   ..
T Consensus       282 yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a  361 (765)
T PRK10049        282 YLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQG  361 (765)
T ss_pred             HHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHH
Confidence            677777777777777765542111   12344555556667777777777777666531           01221   23


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          258 YNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       258 ~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +..+...+...|+.++|+++++++.+..
T Consensus       362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~  389 (765)
T PRK10049        362 QSLLSQVAKYSNDLPQAEMRARELAYNA  389 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3445556666677777777777766543

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

Probab=99.67  E-value=2.1e-15  Score=117.86  Aligned_cols=233  Identities=14%  Similarity=0.128  Sum_probs=115.2

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      ++..|..+...+...++++.|.+.++++...+. -+...+..++.. ...+++++|.++++...+..  ++...+..++.
T Consensus        43 ~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~  118 (280)
T PF13429_consen   43 DPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQ  118 (280)
T ss_dssp             -------------------------------------------------------------------------------H
T ss_pred             ccccccccccccccccccccccccccccccccc-cccccccccccc-cccccccccccccccccccc--cccchhhHHHH
Confidence            444455556666778999999999999887652 245577778777 78999999999998876653  56677888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSG-FSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      .+.+.++++++..+++.+.... .+.+...|..+...+.+.|++++|++.+++..+.. |.+....+.++..+...|+.+
T Consensus       119 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~  197 (280)
T PF13429_consen  119 LYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYD  197 (280)
T ss_dssp             -HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChH
Confidence            9999999999999999986543 34577788899999999999999999999999873 446778889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      ++..++....+.. +.+...+..+..++...|+.++|...|++..+.. +.|......+..++...|+.++|.++.++..
T Consensus       198 ~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  198 EAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            9999998887763 5577788999999999999999999999998863 3388888999999999999999999988765


Q ss_pred             H
Q 043969          248 S  248 (300)
Q Consensus       248 ~  248 (300)
                      .
T Consensus       276 ~  276 (280)
T PF13429_consen  276 R  276 (280)
T ss_dssp             -
T ss_pred             c
Confidence            4

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.67  E-value=1.3e-12  Score=115.51  Aligned_cols=274  Identities=12%  Similarity=-0.024  Sum_probs=174.2

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      |.+...+..+...+...|+.++|+..+++..... +.+.. +..+..++...|+.++|+..++++.+..+. +...+..+
T Consensus        80 P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~l  156 (765)
T PRK10049         80 PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEY  156 (765)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3456667777788888889999999888877653 34455 777888888889999999998888887543 45555555


Q ss_pred             HHHHHhcCCHHHHHHHH----------------------------------------------HHHHhC-CCCCCHh-HH
Q 043969           87 MCAKYRLGKLDQFHRLL----------------------------------------------DEMGRS-GFSPDFH-TY  118 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~----------------------------------------------~~~~~~-~~~~~~~-~~  118 (300)
                      ..++...+..+.|++.+                                              +.+.+. ...|+.. .+
T Consensus       157 a~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~  236 (765)
T PRK10049        157 VQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADY  236 (765)
T ss_pred             HHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHH
Confidence            55555555544444333                                              333321 1112111 11


Q ss_pred             H----HHHHHHhcCCChHHHHHHHHHHHHcCCC-CcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC---ccccHHH
Q 043969          119 N----ILLHVLGKGDKPLAALNLLNHMKEVGFD-PSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP---DVVCYTV  190 (300)
Q Consensus       119 ~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~  190 (300)
                      .    ..+..+...|++++|+..|+.+.+.+.+ |+. ....+...|...|++++|+..|+.+.......   .......
T Consensus       237 ~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~  315 (765)
T PRK10049        237 QRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELAD  315 (765)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHH
Confidence            1    1122345567888888888888776422 222 22224667888888888888888876542111   1233455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-----------CCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHH
Q 043969          191 MITSYIAAGELEKAQDLFDGMITKGQ-----------LPN---VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFL  256 (300)
Q Consensus       191 li~~~~~~~~~~~a~~~~~~~~~~~~-----------~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  256 (300)
                      +..++...|++++|..+++.+.+...           .|+   ...+..+...+...|++++|+++++++... .+.+..
T Consensus       316 L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~  394 (765)
T PRK10049        316 LFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQG  394 (765)
T ss_pred             HHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHH
Confidence            66677788888888888887776421           123   234456666777778888888888877765 234456


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          257 VYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       257 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+..+...+...|++++|++.+++.++..
T Consensus       395 l~~~lA~l~~~~g~~~~A~~~l~~al~l~  423 (765)
T PRK10049        395 LRIDYASVLQARGWPRAAENELKKAEVLE  423 (765)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence            66777777777788888888877777654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=1.3e-12  Score=106.82  Aligned_cols=253  Identities=11%  Similarity=0.053  Sum_probs=191.4

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH--HHHHHHHhcCCHHHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYN--IVMCAKYRLGKLDQFH  100 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~  100 (300)
                      .|++++|.+.+.......-.|. ..|.....+..+.|+++.|...+.++.+.  .|+.....  .....+...|++++|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~-l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPV-VNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchH-HHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            5899999988887655421222 23444455558999999999999999876  44443332  3357888999999999


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH-------hhHHHHHHHHHhCCCHHHHHHHH
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV-------LHFTTLMDGLSRAGNLDACKYFF  173 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~  173 (300)
                      ..++.+.+.. |-++.....+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...+++
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999998876 557788899999999999999999999999987654322       12333444444555667777777


Q ss_pred             HHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC
Q 043969          174 DEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP  253 (300)
Q Consensus       174 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (300)
                      +.+.+. .+.+......+...+...|+.++|.+++.+..+.  .|+....  ++.+....++.+++.+..+...+. .+-
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--LLIPRLKTNNPEQLEKVLRQQIKQ-HGD  326 (398)
T ss_pred             HhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh-CCC
Confidence            776544 2447778889999999999999999999999874  4455332  334445669999999999999976 233


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          254 NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       254 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |...+..+...+.+.|++++|.+.|+++.+..
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~  358 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQR  358 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            55678888999999999999999999999886

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

Probab=99.65  E-value=1.2e-13  Score=112.63  Aligned_cols=254  Identities=11%  Similarity=0.034  Sum_probs=178.4

Q ss_pred             cHHHHHHHHHHhhhcCCCcCH-HHHHHHHHHHHccCcHHHHHHHHHHhhhCCC---------------------------
Q 043969           25 LARKVVERFIKSKLFNFRPFK-NSYNAILHALLGIRQYKLIEWVYQQMSDEGY---------------------------   76 (300)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------------   76 (300)
                      +.++|+..|.+....  .+++ .....+.++|...+++++|+.+|+.+.+..+                           
T Consensus       334 ~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            567788888774443  3333 4666778888888888888888887765421                           


Q ss_pred             ------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH
Q 043969           77 ------APDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV  150 (300)
Q Consensus        77 ------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  150 (300)
                            +-.+.+|.++.++|.-.++.+.|++.|++..+.. +....+|+.+..-+....++|.|...|+...... +-+-
T Consensus       412 ~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhY  489 (638)
T KOG1126|consen  412 DLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHY  489 (638)
T ss_pred             HHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhh
Confidence                  2245667777777777778888888888777663 2256777777777777778888888887776531 1122


Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGF  230 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  230 (300)
                      ..|-.+.-.|.+.++++.|+-.|+...+.+ +-+.+....+...+-+.|+.|+|++++++....... |+..--..+..+
T Consensus       490 nAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il  567 (638)
T KOG1126|consen  490 NAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASIL  567 (638)
T ss_pred             HHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHH
Confidence            344456667888888888888888887764 225556666777778888888888888888776544 444444456666


Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          231 CMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ...+++++|+..++++++. ++-+...|..+...|.+.|+.+.|+.-|.-+.+.+
T Consensus       568 ~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  568 FSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            7778888888888888875 33345667777788888888888888777776654

>PRK12370 invasion protein regulator; Provisional

Probab=99.65  E-value=1.6e-12  Score=110.81  Aligned_cols=266  Identities=10%  Similarity=-0.003  Sum_probs=177.6

Q ss_pred             chHHHHHHHHHhh-----ccccHHHHHHHHHHhhhcCCCcC-HHHHHHHHHHHH---------ccCcHHHHHHHHHHhhh
Q 043969            9 TARTFNILICTCG-----EVGLARKVVERFIKSKLFNFRPF-KNSYNAILHALL---------GIRQYKLIEWVYQQMSD   73 (300)
Q Consensus         9 ~~~~~~~ll~~~~-----~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~   73 (300)
                      +...|...+.+..     ..++.++|.+.|++....  .|+ ...|..+..++.         ..+++++|...+++..+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            3444555554421     134577888889888766  344 335555554433         23457889999998888


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           74 EGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        74 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      ..+. +...+..+...+...|++++|...+++..+.+ +.+...+..+...+...|++++|...+++..+.... +...+
T Consensus       333 ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~  409 (553)
T PRK12370        333 LDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAG  409 (553)
T ss_pred             cCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhH
Confidence            7544 67778888888888899999999999988775 445677888888888999999999999998886422 22233


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      ..++..+...|++++|...+++......+-+...+..+..++...|+.++|...+.++.... ..+....+.+...|...
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhcc
Confidence            34444566688899999998887765322234456677778888999999999988876542 12344455555666776


Q ss_pred             CCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          234 GKFDEACTMMKEMESR-GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       234 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |  ++|...++.+.+. .-.+....+  +-..+.-.|+.+.+..+ +++.+.|
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            6  4777777776653 122222222  33345666777776665 8888776

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

Probab=99.63  E-value=9.1e-13  Score=98.85  Aligned_cols=257  Identities=10%  Similarity=0.083  Sum_probs=141.8

Q ss_pred             ccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC---CHhhHHHHHHHHHhcCCHHHHH
Q 043969           24 GLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAP---DILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      ++.++|.++|.++.+.+ +-+..+.-+|.+.+.+.|..+.|+.+.+.+.++.--+   .......+..-|...|-+|.|+
T Consensus        49 ~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          49 NQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             cCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            45666677776666532 2223355566666666777777777766666541110   0122334445566666677777


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH----hhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV----LHFTTLMDGLSRAGNLDACKYFFDEM  176 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (300)
                      .+|..+.+.+ ..-......|+..|-...+|++|+++-+++.+.+-.+..    ..|.-+...+....+.+.|...+...
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            7776666544 334555666666777777777777766666665433221    23444444555556666666666666


Q ss_pred             HhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHH
Q 043969          177 ANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFL  256 (300)
Q Consensus       177 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  256 (300)
                      .+.+ +..+..-..+.+.....|+++.|.+.++...+.+...-..+...|..+|.+.|+.++....+.++.+...  ...
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 LQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNT--GAD  283 (389)
T ss_pred             HhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccC--Ccc
Confidence            5542 1123333344455666677777777777666664444445566666677777777777766666665422  222


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          257 VYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       257 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .-..+-+.-....-.+.|..++.+-+.+.
T Consensus       284 ~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~  312 (389)
T COG2956         284 AELMLADLIELQEGIDAAQAYLTRQLRRK  312 (389)
T ss_pred             HHHHHHHHHHHhhChHHHHHHHHHHHhhC
Confidence            22233332233333445555554444443

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

Probab=99.63  E-value=4.7e-12  Score=95.08  Aligned_cols=232  Identities=15%  Similarity=0.110  Sum_probs=170.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------hHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDF------HTYNI  120 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~  120 (300)
                      .|-.-++.+ -+++.++|.++|-+|.+... .+..+.-++.+.|.+.|..|.|+++.+.+.++   ||.      .....
T Consensus        38 ~Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d~-~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~q  112 (389)
T COG2956          38 DYVKGLNFL-LSNQPDKAVDLFLEMLQEDP-ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQ  112 (389)
T ss_pred             HHHhHHHHH-hhcCcchHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHH
Confidence            344444433 34677888888888887532 25556667778888888888888888888765   442      23445


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc----cccHHHHHHHHH
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD----VVCYTVMITSYI  196 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~  196 (300)
                      |..-|...|-+|.|+.+|..+.+.+ ..-......|+..|-...+|++|.++-+++.+.+..+.    ...|..+...+.
T Consensus       113 L~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~  191 (389)
T COG2956         113 LGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQAL  191 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHh
Confidence            5666888888888888888888754 33455677888888888888888888888877654443    245777888888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043969          197 AAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      ...+.+.|..++.+..+.+.+ .+..--.+.+.....|+++.|.+.++...+.+...-..+...|..+|...|+.++...
T Consensus       192 ~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~  270 (389)
T COG2956         192 ASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLN  270 (389)
T ss_pred             hhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            888888888888888776432 3444445667788888888888888888887555556677888888888888888888


Q ss_pred             HHHHHHHcC
Q 043969          277 VIRHMVEKG  285 (300)
Q Consensus       277 ~~~~~~~~~  285 (300)
                      .+.++.+..
T Consensus       271 fL~~~~~~~  279 (389)
T COG2956         271 FLRRAMETN  279 (389)
T ss_pred             HHHHHHHcc
Confidence            888888765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.62  E-value=2.6e-12  Score=97.74  Aligned_cols=199  Identities=12%  Similarity=0.094  Sum_probs=110.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHH
Q 043969           81 LTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGL  160 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (300)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
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 2234444555555555555555555555555442 22334445555555


Q ss_pred             HhCCCHHHHHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 043969          161 SRAGNLDACKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      ...|++++|...++........+ ....+..+...+...|++++|...+.+..+... .+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHHHH
Confidence            56666666666666555431111 223445555666666777777777766665422 2345566666677777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          240 CTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ...+++..+. .+.+...+..+...+...|+.++|..+.+.+.+
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            7777766654 233445555566666667777777776666543

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=99.61  E-value=2.9e-12  Score=97.45  Aligned_cols=203  Identities=11%  Similarity=0.029  Sum_probs=167.5

Q ss_pred             cCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHH
Q 043969           43 PFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILL  122 (300)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (300)
                      .....+..+...+...|++++|...+++..+..+ .+...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            3345788889999999999999999999987643 357788888899999999999999999988765 45667788888


Q ss_pred             HHHhcCCChHHHHHHHHHHHHcCC-CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCH
Q 043969          123 HVLGKGDKPLAALNLLNHMKEVGF-DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGEL  201 (300)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  201 (300)
                      ..+...|++++|.+.+++...... +.....+..+...+...|++++|...+....... +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            899999999999999999987532 2234567778888999999999999999988763 23456788888999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          202 EKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+...
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999998876 3446677778888889999999999998877653

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.

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

Probab=99.61  E-value=3e-11  Score=93.32  Aligned_cols=255  Identities=11%  Similarity=0.078  Sum_probs=155.1

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRL  102 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (300)
                      .|+|.+|...+.+..+.+..|- ..|....++.-+.|+.+.+-.++.+.-+....++....-+........|+++.|..-
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 EGDFQQAEKLLRRNAEHGEQPV-LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchH-HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            4677777777776665553332 255556666666677777777776666553344555555555666666777777666


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH-------hhHHHHHHHHHhCCCHHHHHHHHHH
Q 043969          103 LDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV-------LHFTTLMDGLSRAGNLDACKYFFDE  175 (300)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  175 (300)
                      ++++.+.+ +.++........+|.+.|++.....++..+.+.+.-.+.       .+|+.+++-....+..+.-...++.
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 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            66666654 445566666666777777777777766666665543222       2333444333333333333333333


Q ss_pred             HHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC------------------------------CCHHHHHH
Q 043969          176 MANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL------------------------------PNVFTYNS  225 (300)
Q Consensus       176 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~------------------------------p~~~~~~~  225 (300)
                      .... .+.++..-..++.-+.++|+.++|.++..+..+.+..                              -++..+..
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~t  333 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLST  333 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHH
Confidence            3222 1223333334444444444444444444433332221                              24467788


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      |...|.+.+.|.+|.+.|+...+.  .|+..+|+.+..++.+.|+.++|.+..++..
T Consensus       334 LG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         334 LGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            889999999999999999977764  7889999999999999999999999888765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.61  E-value=1.6e-11  Score=107.44  Aligned_cols=265  Identities=11%  Similarity=0.111  Sum_probs=159.0

Q ss_pred             HHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC
Q 043969           15 ILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG   94 (300)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (300)
                      .++..+...|+.++|+..+++.... .+........+...+...|++++|+++|+++.+..+. ++..+..++..+...+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcC
Confidence            5555555566666666666665511 0111122223344566667777777777777666433 4555555566666667


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHH
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFD  174 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (300)
                      +.++|++.++++...  .|+...+..++..+...++..+|++.++++.+.. |.+...+..+..+..+.|-...|.++..
T Consensus       151 q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        151 RGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             CHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            777777777666555  3454444444444444455555777777776653 3344455555555555443333322222


Q ss_pred             ------------------------------------------------HHHhC-CCCCcc-ccH----HHHHHHHHhcCC
Q 043969          175 ------------------------------------------------EMANK-GCMPDV-VCY----TVMITSYIAAGE  200 (300)
Q Consensus       175 ------------------------------------------------~~~~~-~~~~~~-~~~----~~li~~~~~~~~  200 (300)
                                                                      .+... +..|.. ..|    .-.+-++...|+
T Consensus       228 ~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r  307 (822)
T PRK14574        228 ENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQ  307 (822)
T ss_pred             hCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhh
Confidence                                                            22110 111211 111    123456677888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCCHHHHH
Q 043969          201 LEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-----CNPNFLVYNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       201 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~a~  275 (300)
                      +.++++.|+.+...+.+....+-..+..+|...+++++|..+++.+....     ..++......|.-++...+++++|.
T Consensus       308 ~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~  387 (822)
T PRK14574        308 TADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAY  387 (822)
T ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHH
Confidence            88899999988887765455677888999999999999999999887642     1223344577888899999999999


Q ss_pred             HHHHHHHHc
Q 043969          276 EVIRHMVEK  284 (300)
Q Consensus       276 ~~~~~~~~~  284 (300)
                      .+++++.+.
T Consensus       388 ~~l~~~~~~  396 (822)
T PRK14574        388 QFAVNYSEQ  396 (822)
T ss_pred             HHHHHHHhc
Confidence            999999874

>TIGR00540 hemY_coli hemY protein

Probab=99.60  E-value=1.6e-11  Score=101.04  Aligned_cols=259  Identities=8%  Similarity=-0.050  Sum_probs=182.7

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (300)
                      ...|+++.|.+.+.+....  .|+.. .+-....+....|+.+.|.+.+.+..+....++....-.....+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            3468999999999887665  34433 44555677888899999999999988764333333444457888899999999


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHH---HhCCCHHHHHHHHHHH
Q 043969          100 HRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGL---SRAGNLDACKYFFDEM  176 (300)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~  176 (300)
                      ...++.+.+.. |-++.+...+...+...|++++|.+.+..+.+.+..+.......-..++   ...+..+.+...+..+
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999998885 5577788999999999999999999999999986543332211111221   2222333333344444


Q ss_pred             HhCC---CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 043969          177 ANKG---CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFT-YNSMIRGFCMAGKFDEACTMMKEMESRGCN  252 (300)
Q Consensus       177 ~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (300)
                      .+..   .+.+...+..+...+...|+.++|.+++++..+......... ...........++.+.+.+.++...+.  .
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~  329 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--V  329 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--C
Confidence            4431   123778888999999999999999999999998633221111 122222234457888999999888875  3


Q ss_pred             CC-H--HHHHHHHHHHHhcCCHHHHHHHHHH--HHHc
Q 043969          253 PN-F--LVYNTLVSNLRNAGKLAEAHEVIRH--MVEK  284 (300)
Q Consensus       253 ~~-~--~~~~~li~~~~~~g~~~~a~~~~~~--~~~~  284 (300)
                      |+ .  ....++...+.+.|++++|.+.|++  ..+.
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~  366 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKE  366 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhc
Confidence            43 3  5566888999999999999999994  5443

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.60  E-value=3.8e-11  Score=105.19  Aligned_cols=265  Identities=11%  Similarity=0.074  Sum_probs=189.9

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      ...+...|++++|+++++++.... +-+...+..++..+...++.++|++.++++...  .|+...+..++..+...++.
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~  185 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRN  185 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchH
Confidence            457788899999999999998875 334557778888999999999999999999877  45555554444444446666


Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHH-----------------------------------
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHM-----------------------------------  141 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----------------------------------  141 (300)
                      .+|++.++++.+.. |.+...+..+..+..+.|-...|.++..+-                                   
T Consensus       186 ~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        186 YDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            66999999999885 456777888888888888766665554321                                   


Q ss_pred             -------------HHc-C-CCCcHhhH----HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          142 -------------KEV-G-FDPSVLHF----TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       142 -------------~~~-~-~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                                   ... + .++....|    .--+-++...++..++++.|+.+...+.+....+-..+..+|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence                         110 0 11111111    1224466778888899999999887775545557778888899999999


Q ss_pred             HHHHHHHHHHHCC-----CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC-----------CCC--H-HHHHHHHH
Q 043969          203 KAQDLFDGMITKG-----QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGC-----------NPN--F-LVYNTLVS  263 (300)
Q Consensus       203 ~a~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~--~-~~~~~li~  263 (300)
                      +|..+|+.+....     ..++......|.-++...+++++|..+++++.+...           .||  - ..+..++.
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~  424 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQ  424 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHH
Confidence            9999999886642     123444457788888889999999999988887311           122  2 23445566


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 043969          264 NLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+...|+..+|++.++++....
T Consensus       425 ~~~~~gdl~~Ae~~le~l~~~a  446 (822)
T PRK14574        425 SLVALNDLPTAQKKLEDLSSTA  446 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            7788899999999999888765

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

Probab=99.57  E-value=1.2e-11  Score=97.17  Aligned_cols=264  Identities=11%  Similarity=0.074  Sum_probs=192.9

Q ss_pred             HHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCC--CCHhhHHHHH--------
Q 043969           18 CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYA--PDILTYNIVM--------   87 (300)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~--------   87 (300)
                      .++....+.++++.-.......|.+-+...-+....+.-...+++.|+.+|+++.+..+-  -|..+|..++        
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            344444566666666666666665444444444444555667788888888887776321  1455554443        


Q ss_pred             -----------------------HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           88 -----------------------CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        88 -----------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                                             +-|+-.++.++|...|+...+.+ +.....|+.+..-|....+...|+.-++...+.
T Consensus       315 Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi  393 (559)
T KOG1155|consen  315 LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI  393 (559)
T ss_pred             HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc
Confidence                                   23344467889999999988876 445677888888899999999999999999887


Q ss_pred             CCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043969          145 GFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYN  224 (300)
Q Consensus       145 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  224 (300)
                      . |.|-..|-.|.++|.-.+.+.-|+-.|++..... +-|...|.+|..+|.+.++.++|++.|......|-. +...+.
T Consensus       394 ~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~  470 (559)
T KOG1155|consen  394 N-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALV  470 (559)
T ss_pred             C-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHH
Confidence            4 5688889999999999999999999999888763 447889999999999999999999999998887543 667888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHC----CC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          225 SMIRGFCMAGKFDEACTMMKEMESR----GC-NP-NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+...|-+.++.++|...+.+.++.    |. .| ......-|..-+.+.+++++|..+.......+
T Consensus       471 ~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~  537 (559)
T KOG1155|consen  471 RLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGE  537 (559)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCC
Confidence            9999999999999999988877752    22 22 22233335556788889988888777666554

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

Probab=99.56  E-value=1.1e-10  Score=90.24  Aligned_cols=236  Identities=15%  Similarity=0.142  Sum_probs=189.6

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHH
Q 043969           57 GIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALN  136 (300)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (300)
                      ..|+|..|++...+..+.+..| ...|..-..+.-+.|+.+.+-+++.+..+..-.++....-+........|+.+.|..
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 FEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            4699999999999988887553 556666778888999999999999999876335666777778888999999999999


Q ss_pred             HHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc-------cccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          137 LLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD-------VVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                      -+.++.+.+ +.++........+|.+.|++.....+...+.+.|.-.+       ..+|..+++-....+..+.-...|+
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            999999885 45667888999999999999999999999999887554       3468888888777777888778888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC------------------------------CHHHHH
Q 043969          210 GMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP------------------------------NFLVYN  259 (300)
Q Consensus       210 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------------------------~~~~~~  259 (300)
                      ..... .+-++..-..++.-+.+.|+.++|.++..+..+.+..|                              ++..+.
T Consensus       254 ~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~  332 (400)
T COG3071         254 NQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLS  332 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHH
Confidence            87665 44466677788888899999999999888776654332                              345578


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC----hHHHHHHHhh
Q 043969          260 TLVSNLRNAGKLAEAHEVIRHMVEKG----KYIHLVSKFK  295 (300)
Q Consensus       260 ~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~l~~~~~  295 (300)
                      +|...|.+.+.|.+|.+.|+..++.+    .|.-+...+.
T Consensus       333 tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~  372 (400)
T COG3071         333 TLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALD  372 (400)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHH
Confidence            88889999999999999999998877    4444444443

>PRK12370 invasion protein regulator; Provisional

Probab=99.55  E-value=1.3e-11  Score=105.39  Aligned_cols=232  Identities=13%  Similarity=0.019  Sum_probs=171.7

Q ss_pred             CHHHHHHHHHHHHc-----cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH---------hcCCHHHHHHHHHHHHhC
Q 043969           44 FKNSYNAILHALLG-----IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKY---------RLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        44 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~  109 (300)
                      +...|...+++...     .+.+++|...|++..+..+. +...|..+..++.         ..+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            34455555555322     23467999999999987433 4556666655443         224589999999999887


Q ss_pred             CCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc-ccH
Q 043969          110 GFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV-VCY  188 (300)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~  188 (300)
                      . +.+...+..+...+...|++++|...+++..+.+ +.+...+..+...+...|++++|...++...+..  |+. ..+
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~  409 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAG  409 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhH
Confidence            5 5567788888888999999999999999999874 4456778888899999999999999999998874  443 233


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF-LVYNTLVSNLRN  267 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~  267 (300)
                      ..+...+...|++++|...+++..+...+-+...+..+..++...|++++|...+.++...  .|+. ...+.+...|..
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhc
Confidence            4445556778999999999999876532224556777888899999999999999987664  3443 344555556677


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 043969          268 AGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       268 ~g~~~~a~~~~~~~~~~  284 (300)
                      .|  +.|...++++.+.
T Consensus       488 ~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        488 NS--ERALPTIREFLES  502 (553)
T ss_pred             cH--HHHHHHHHHHHHH
Confidence            77  4888888887764

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

Probab=99.54  E-value=3.9e-13  Score=112.98  Aligned_cols=250  Identities=14%  Similarity=0.128  Sum_probs=150.7

Q ss_pred             CccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 043969            1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         1 m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (300)
                      |...|+.|+..||..+|..||..|+++.|- +|.-|...+.+.+...++.++.+....++.+.+.           .|..
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~a   83 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLA   83 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCch
Confidence            356799999999999999999999999888 8888877777777778888888888888776665           5778


Q ss_pred             hhHHHHHHHHHhcCCHHH---HHHHHHHH----HhCCCCCCHhHHHHH--------------HHHHhcCCChHHHHHHHH
Q 043969           81 LTYNIVMCAKYRLGKLDQ---FHRLLDEM----GRSGFSPDFHTYNIL--------------LHVLGKGDKPLAALNLLN  139 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~---a~~~~~~~----~~~~~~~~~~~~~~l--------------~~~~~~~~~~~~a~~~~~  139 (300)
                      .+|..+..+|...||+..   +.+.+..+    ...|+......+-..              +....-.|-++.+++++.
T Consensus        84 Dtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~  163 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLA  163 (1088)
T ss_pred             hHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHh
Confidence            889999999999988654   22222222    222221111111111              111112233333333332


Q ss_pred             HHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043969          140 HMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN  219 (300)
Q Consensus       140 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  219 (300)
                      .+.......   .+..+++-+...  +.-.+++........-.|++.+|..++..-..+|+.+.|..++.+|.+.|++.+
T Consensus       164 ~~Pvsa~~~---p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  164 KVPVSAWNA---PFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             hCCcccccc---hHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            222110000   111112222221  122233333222221146777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043969          220 VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGK  270 (300)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  270 (300)
                      ..-|..++-+   .++..-+..+++-|...|+.|+..|+.-.+-.+.+.|.
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            7766666665   56666677777777777777777777666655555333

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

Probab=99.52  E-value=7.3e-12  Score=102.48  Aligned_cols=239  Identities=9%  Similarity=-0.019  Sum_probs=192.5

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCC---------------------------------CcCHHHHHHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNF---------------------------------RPFKNSYNAILHAL   55 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------~~~~~~~~~l~~~~   55 (300)
                      +..+...+..+|...++++++..+|+..+....                                 +-...+|.++.+.|
T Consensus       352 t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcf  431 (638)
T KOG1126|consen  352 TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCF  431 (638)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchh
Confidence            346677788899999999999999988654321                                 22344899999999


Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHH
Q 043969           56 LGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAAL  135 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  135 (300)
                      .-.++.+.|++.|++..+.... ...+|+.+..-+....++|.|...|+...... +.+-..|--+...|.+.++++.|+
T Consensus       432 SLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~vy~Kqek~e~Ae  509 (638)
T KOG1126|consen  432 SLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGTVYLKQEKLEFAE  509 (638)
T ss_pred             hhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhhheeccchhhHHH
Confidence            9999999999999999987432 67888888888999999999999999987543 223445566778899999999999


Q ss_pred             HHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043969          136 NLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG  215 (300)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  215 (300)
                      -.|++..+.+ |-+.+....+...+.+.|+.++|++++++...... .|+..--..+..+...+++++|+..++++.+. 
T Consensus       510 ~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~-  586 (638)
T KOG1126|consen  510 FHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYVEALQELEELKEL-  586 (638)
T ss_pred             HHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchHHHHHHHHHHHHh-
Confidence            9999999874 44666677788889999999999999999987642 35555556677778899999999999999986 


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 043969          216 QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN  252 (300)
Q Consensus       216 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (300)
                      ++-+...|..+...|.+.|+.+.|+.-|.-+.+..-+
T Consensus       587 vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  587 VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            3335677888999999999999999988888876433

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

Probab=99.51  E-value=6.7e-12  Score=94.56  Aligned_cols=230  Identities=12%  Similarity=0.067  Sum_probs=195.0

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHH-HHHHHHHhc
Q 043969           49 NAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTY-NILLHVLGK  127 (300)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~  127 (300)
                      +.+.++|.+.|-+.+|++.++..++.  .|-+.||-.+-..|.+..+.+.|+.++.+-.+.  .|-.+|| .-..+.+..
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            67899999999999999999998877  456778888999999999999999999988776  3544444 556778888


Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHH
Q 043969          128 GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDL  207 (300)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  207 (300)
                      .++.++|.++|+...+.. +.++.....+...|.-.++++-|.+.|+.+...|+. +...|+.+.-+|.-.+++|-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            999999999999998873 556677777788899999999999999999999875 788999999999999999999999


Q ss_pred             HHHHHHCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          208 FDGMITKGQLPN--VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       208 ~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |++....--.|+  ...|..+.......||+..|.+.|+-....+ .-....++.|.-.-.+.|++++|..+++...+..
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            999887644444  4578888999999999999999999888763 2356788888877789999999999999888765

>PF13041 PPR_2: PPR repeat family

Probab=99.51  E-value=8.2e-14  Score=77.92  Aligned_cols=48  Identities=44%  Similarity=0.836  Sum_probs=21.4

Q ss_pred             CccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          183 PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGF  230 (300)
Q Consensus       183 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  230 (300)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++++|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444

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

Probab=99.50  E-value=8e-10  Score=93.75  Aligned_cols=266  Identities=10%  Similarity=0.043  Sum_probs=194.0

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      .....-.|+.++|.+++.+....+ +.+...|.+|...|-..|+.+++...+-.+.-..++ |...|..+.....+.|++
T Consensus       146 AN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i  223 (895)
T KOG2076|consen  146 ANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNI  223 (895)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccH
Confidence            333444599999999999988765 455568999999999999999998777655544433 778899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhH----HHHHHHHHhCCCHHHHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHF----TTLMDGLSRAGNLDACKYF  172 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~  172 (300)
                      ++|.-+|.+..+.. +++...+-.-...|-+.|+...|...|.++.....+.+..-+    ...+..+...++-+.|.+.
T Consensus       224 ~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~  302 (895)
T KOG2076|consen  224 NQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKA  302 (895)
T ss_pred             HHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999998875 556566666677888999999999999999887432232222    2334556667777888888


Q ss_pred             HHHHHhC-CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------------------------CC-------
Q 043969          173 FDEMANK-GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG---------------------------QL-------  217 (300)
Q Consensus       173 ~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~-------  217 (300)
                      ++..... +-..+...++.++..+.+...++.|......+....                           ..       
T Consensus       303 le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~r  382 (895)
T KOG2076|consen  303 LEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIR  382 (895)
T ss_pred             HHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHh
Confidence            8776652 223455667777777777777777777666655410                           00       


Q ss_pred             -----------------------------CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043969          218 -----------------------------PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNA  268 (300)
Q Consensus       218 -----------------------------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  268 (300)
                                                   -+...|..+..+|...|++.+|+.++..+......-+...|..+..+|...
T Consensus       383 l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  383 LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence                                         122345667778888888888888888888764444566788888888888


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 043969          269 GKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       269 g~~~~a~~~~~~~~~~~  285 (300)
                      |..++|.+.+++.+...
T Consensus       463 ~e~e~A~e~y~kvl~~~  479 (895)
T KOG2076|consen  463 GEYEEAIEFYEKVLILA  479 (895)
T ss_pred             hhHHHHHHHHHHHHhcC
Confidence            88888888888887754

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

Probab=99.50  E-value=6.7e-11  Score=93.14  Aligned_cols=241  Identities=9%  Similarity=0.042  Sum_probs=188.4

Q ss_pred             cCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCC--cCHHHHHHH-----------------------------
Q 043969            3 ENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFR--PFKNSYNAI-----------------------------   51 (300)
Q Consensus         3 ~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l-----------------------------   51 (300)
                      +-|++-+...-+....+.-...|+++|...|++..+.+.-  -|..+|+.+                             
T Consensus       255 ~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCC  334 (559)
T KOG1155|consen  255 SVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCC  334 (559)
T ss_pred             hccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCcccee
Confidence            3466666665555556666778999999999998776421  122244332                             


Q ss_pred             --HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC
Q 043969           52 --LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD  129 (300)
Q Consensus        52 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (300)
                        .+-|.-.++.++|...|++.++.++. ....|+.+..-|....+...|.+.++...+.. |.|-..|-.|..+|.-.+
T Consensus       335 iIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~  412 (559)
T KOG1155|consen  335 IIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMK  412 (559)
T ss_pred             eehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhc
Confidence              33334446789999999999998644 67789999999999999999999999999886 678889999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          130 KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                      -+.=|+-.|++..+.. |.|...|.+|.++|.+.++.++|++.|......| ..+...+..|...|-+.++..+|...|.
T Consensus       413 Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~ye  490 (559)
T KOG1155|consen  413 MHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYE  490 (559)
T ss_pred             chHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            9999999999998873 6688999999999999999999999999998876 3366889999999999999999999998


Q ss_pred             HHHHC----CCC-C-CHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          210 GMITK----GQL-P-NVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       210 ~~~~~----~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +.++.    |.. | ......-|..-+.+.+++++|........
T Consensus       491 k~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  491 KYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            87653    332 2 22333345666777888888776554444

>PF13041 PPR_2: PPR repeat family

Probab=99.50  E-value=1.1e-13  Score=77.38  Aligned_cols=50  Identities=48%  Similarity=0.937  Sum_probs=48.5

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043969          218 PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRN  267 (300)
Q Consensus       218 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  267 (300)
                      ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999874

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

Probab=99.49  E-value=1.9e-11  Score=104.06  Aligned_cols=280  Identities=13%  Similarity=0.087  Sum_probs=213.0

Q ss_pred             ccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhc---CCCcCH------HHHHHHHHHHHccCcHHHHHHHHHHhh
Q 043969            2 IENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLF---NFRPFK------NSYNAILHALLGIRQYKLIEWVYQQMS   72 (300)
Q Consensus         2 ~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (300)
                      ..+|-++.+...|.+...+...|++.+|.+.|...+..   ...++.      .+-..+.+.+-..++++.|.+.|....
T Consensus       444 ~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Il  523 (1018)
T KOG2002|consen  444 ESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSIL  523 (1018)
T ss_pred             HHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            34566788899999999999999999999999887655   123333      123335666677789999999999998


Q ss_pred             hCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcHh
Q 043969           73 DEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG-FDPSVL  151 (300)
Q Consensus        73 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~  151 (300)
                      +..+. =+..|--+.......+...+|...+....... ..++..++.+...+.+..++..|.+-|..+.+.- ..+|+.
T Consensus       524 kehp~-YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Y  601 (1018)
T KOG2002|consen  524 KEHPG-YIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAY  601 (1018)
T ss_pred             HHCch-hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchh
Confidence            87322 24445555544445678888998888887664 5677888888888888888888888777766542 224655


Q ss_pred             hHHHHHHHHHh------------CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043969          152 HFTTLMDGLSR------------AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN  219 (300)
Q Consensus       152 ~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  219 (300)
                      +.-+|.+.|..            .+..++|+++|....... +.|...-|-+...++..|++.+|..+|.+..+... -.
T Consensus       602 sliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~  679 (1018)
T KOG2002|consen  602 SLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DF  679 (1018)
T ss_pred             HHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hC
Confidence            55566665543            345788999999888764 34667777888888999999999999999998744 25


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          220 VFTYNSMIRGFCMAGKFDEACTMMKEMESR-GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..+|-.+.++|...|++..|+++|+...+. .-.-+..+...|.+++.+.|.+.+|.+.+.......
T Consensus       680 ~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  680 EDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             CceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            578889999999999999999999988764 344567888999999999999999999998887765

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

Probab=99.46  E-value=2e-11  Score=92.08  Aligned_cols=231  Identities=12%  Similarity=0.036  Sum_probs=193.1

Q ss_pred             HHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           13 FNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      -+.+.+.|.+.|.+++|.+.+....+.  .|-+.||-.|-++|.+.++...|+.++.+-++.- +-|+....-+...+-.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHH
Confidence            356778899999999999999988776  4555689999999999999999999999888762 3244444556678888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHH
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYF  172 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (300)
                      .++.++|.++++...+.. +.+++....+...|.-.++++.|+..|+++.+.|+. +...|+.+.-+|.-.++++-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            899999999999998774 556777777888888999999999999999999865 778899998899999999999999


Q ss_pred             HHHHHhCCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          173 FDEMANKGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       173 ~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      |+.....--.|+  ...|-.+-......|++..|.+.|+-....+.. +...++.|.-.-.+.|++++|..+++.....
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            998876533343  356778888888899999999999988877544 6788999999999999999999999987764

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

Probab=99.46  E-value=6.1e-10  Score=89.88  Aligned_cols=275  Identities=11%  Similarity=0.012  Sum_probs=214.6

Q ss_pred             CCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH
Q 043969            5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      |+.-++.....-..-+-..+++++.+++++.....+ ++....+..-|..+...|+..+-..+=.++++.- +..+.+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchh
Confidence            334455555556666777889999999999987765 5666677777888999999888888888888874 33788999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG  164 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (300)
                      ++..-|.-.|+.++|.+.|.+..... +.=...|-.....|.-.|..+.|+..+...-+. ++-....+--+.--|.+.+
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhc
Confidence            99988888999999999999886653 222457888889999999999999998887664 2222222333444578889


Q ss_pred             CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CC-CCHHHHHHHHHHHhccCCHHH
Q 043969          165 NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK----G-QL-PNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~-~~-p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      +.+.|.++|.+.... .+-|+...+.+.-.....+.+.+|..+|+.....    + -. --..+++.|..+|.+.+.+++
T Consensus       395 n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            999999999988765 2446677777777777888999999999887632    1 11 134578899999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          239 ACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |+..++..+.. .+-+..++.++.-.|...|+++.|...|.+.+-..
T Consensus       474 AI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  474 AIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALK  519 (611)
T ss_pred             HHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcC
Confidence            99999998876 35578899999999999999999999999988766

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.46  E-value=1.1e-10  Score=96.04  Aligned_cols=237  Identities=19%  Similarity=0.217  Sum_probs=177.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhC-----C-CCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C--CC
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDE-----G-YAPDIL-TYNIVMCAKYRLGKLDQFHRLLDEMGRS-----G--FS  112 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~  112 (300)
                      +...+...|...|+++.|+.++++..+.     | ..|... ..+.+...|...+++++|..+|+++...     |  .+
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            6777999999999999999999988765     2 123333 3344667888999999999999888442     2  11


Q ss_pred             CCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc-----CC-CCcH-hhHHHHHHHHHhCCCHHHHHHHHHHHHhC---CCC
Q 043969          113 PDFHTYNILLHVLGKGDKPLAALNLLNHMKEV-----GF-DPSV-LHFTTLMDGLSRAGNLDACKYFFDEMANK---GCM  182 (300)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~  182 (300)
                      .-..+++.|..+|.+.|++++|...++...+.     +. .|.+ ..++.+...+...+++++|..+++...+.   -..
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            12345677777899999999998888776442     11 2222 34567777889999999999999876442   111


Q ss_pred             Cc----cccHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHH---
Q 043969          183 PD----VVCYTVMITSYIAAGELEKAQDLFDGMITK-----G-QLP-NVFTYNSMIRGFCMAGKFDEACTMMKEMES---  248 (300)
Q Consensus       183 ~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  248 (300)
                      ++    ..+++.|...|...|++++|.+++++....     | ..+ ....++.+...|.+.+++.+|.++|.+...   
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    357899999999999999999999998753     1 112 245678899999999999999999987654   


Q ss_pred             -CCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          249 -RGC-NPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       249 -~~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                       .|. .|+ ..+|..|...|...|+++.|.++.+.+..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence             222 233 46789999999999999999999998874

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

Probab=99.43  E-value=1.9e-10  Score=90.77  Aligned_cols=207  Identities=14%  Similarity=0.147  Sum_probs=163.4

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHH
Q 043969           57 GIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALN  136 (300)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (300)
                      ..|++++|.+.|++.+.....-....||+- -.+-..|++++|+..|-++... +..+..+.-.+.+.|....++..|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            347788888888888876433223333332 3456788999999998877543 23467777888888999999999999


Q ss_pred             HHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043969          137 LLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQ  216 (300)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  216 (300)
                      ++.+.... ++.|+.....|...|-+.|+-.+|++.+-+--.. ++-+..+..+|...|....-+++++.+|++..-  +
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--i  655 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--I  655 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--c
Confidence            99887765 6778889999999999999999998887655433 456788899999999999999999999998754  6


Q ss_pred             CCCHHHHHHHHHHH-hccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043969          217 LPNVFTYNSMIRGF-CMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGK  270 (300)
Q Consensus       217 ~p~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  270 (300)
                      +|+..-|..++..| .+.|++.+|..+++..... ++-|......|++.+...|.
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            89999999888665 4689999999999988765 77788899999998887775

>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=99.43  E-value=3.4e-09  Score=88.27  Aligned_cols=260  Identities=15%  Similarity=0.153  Sum_probs=177.5

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcC-HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc-
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPF-KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL-   93 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-   93 (300)
                      ....+...|++++|++.+......  -+| ..........+.+.|+.++|..+|..++++++. |..-|..+..+.... 
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhc
Confidence            345667889999999999875443  344 446778888999999999999999999998633 444555555554222 


Q ss_pred             ----CCHHHHHHHHHHHHhC----------------------------------CCCCCHhHHHHHHHHHhcCCChHHHH
Q 043969           94 ----GKLDQFHRLLDEMGRS----------------------------------GFSPDFHTYNILLHVLGKGDKPLAAL  135 (300)
Q Consensus        94 ----~~~~~a~~~~~~~~~~----------------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~  135 (300)
                          .+.+...++++++...                                  |+   +.+|..|-..|.......-..
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~Kgv---PslF~~lk~Ly~d~~K~~~i~  163 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGV---PSLFSNLKPLYKDPEKAAIIE  163 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCC---chHHHHHHHHHcChhHHHHHH
Confidence                2455566666665332                                  21   133444444444333334444


Q ss_pred             HHHHHHHHc----C----------CCCcH--hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc-cccHHHHHHHHHhc
Q 043969          136 NLLNHMKEV----G----------FDPSV--LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD-VVCYTVMITSYIAA  198 (300)
Q Consensus       136 ~~~~~~~~~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~  198 (300)
                      +++......    +          -+|+.  .++..+...|...|++++|...++..++.  .|+ +..|..-.+.+-+.
T Consensus       164 ~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~  241 (517)
T PF12569_consen  164 SLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHC
Confidence            444444322    1          12333  24456677788899999999999988887  344 66788888889999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHH------H--HHHHHHHHhcCC
Q 043969          199 GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLV------Y--NTLVSNLRNAGK  270 (300)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~--~~li~~~~~~g~  270 (300)
                      |++++|.+.++..++.... |...-+..+..+.+.|+.++|.+++..+-..+..|....      |  .....+|.+.|+
T Consensus       242 G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999998887554 777778888888999999999999988877654333211      1  234567888899


Q ss_pred             HHHHHHHHHHHHHc
Q 043969          271 LAEAHEVIRHMVEK  284 (300)
Q Consensus       271 ~~~a~~~~~~~~~~  284 (300)
                      +..|++.|..+.+.
T Consensus       321 ~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  321 YGLALKRFHAVLKH  334 (517)
T ss_pred             HHHHHHHHHHHHHH
Confidence            88888887776654

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.42  E-value=1.2e-09  Score=85.97  Aligned_cols=95  Identities=12%  Similarity=-0.058  Sum_probs=47.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR  162 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (300)
                      |..+...+...|+.++|...|++..+.. +.+...|..+...+...|++++|...|+...+.. +-+..++..+..++..
T Consensus        67 ~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~  144 (296)
T PRK11189         67 HYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYY  144 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            4444445555555555555555554443 2334455555555555555555555555555432 1223344444445555


Q ss_pred             CCCHHHHHHHHHHHHhC
Q 043969          163 AGNLDACKYFFDEMANK  179 (300)
Q Consensus       163 ~~~~~~a~~~~~~~~~~  179 (300)
                      .|++++|.+.|+...+.
T Consensus       145 ~g~~~eA~~~~~~al~~  161 (296)
T PRK11189        145 GGRYELAQDDLLAFYQD  161 (296)
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            55555555555555443

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

Probab=99.42  E-value=8.3e-10  Score=93.64  Aligned_cols=273  Identities=12%  Similarity=0.118  Sum_probs=162.0

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      .....|.+|...|-+.|+.++++..+-..-..+ +.|...|..+.....+.|.++.|.-.|.+.++..+ ++....---+
T Consensus       171 ~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p-~n~~~~~ers  248 (895)
T KOG2076|consen  171 RNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCYSRAIQANP-SNWELIYERS  248 (895)
T ss_pred             cchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC-cchHHHHHHH
Confidence            344556666666666666666665554433332 33334566666656666666666666666665532 2333333334


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHH----HHHHHHhcCCChHHHHHHHHHHHHc-CCCCcHhhHHHHHHHHHh
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYN----ILLHVLGKGDKPLAALNLLNHMKEV-GFDPSVLHFTTLMDGLSR  162 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~  162 (300)
                      ..|-+.|+...|...|.++....-+.|..-+.    ..+..+...++.+.|.+.++..... +-..+...++.++..+.+
T Consensus       249 ~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~  328 (895)
T KOG2076|consen  249 SLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLK  328 (895)
T ss_pred             HHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHH
Confidence            45555566655555555555442111111111    1223333444444444444443331 111222233333333333


Q ss_pred             CCC-------------------------------------------------------------HHHHHHHHHHHHhCCC
Q 043969          163 AGN-------------------------------------------------------------LDACKYFFDEMANKGC  181 (300)
Q Consensus       163 ~~~-------------------------------------------------------------~~~a~~~~~~~~~~~~  181 (300)
                      ...                                                             .+....+.....+...
T Consensus       329 ~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~  408 (895)
T KOG2076|consen  329 NKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNV  408 (895)
T ss_pred             hHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcC
Confidence            333                                                             3333344444443332


Q ss_pred             --CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043969          182 --MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYN  259 (300)
Q Consensus       182 --~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  259 (300)
                        .-+...|.-+..++...|++.+|+.+|..+......-+...|-.+.++|...|.+++|.+.++..+... +.+...--
T Consensus       409 ~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri  487 (895)
T KOG2076|consen  409 WVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARI  487 (895)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhh
Confidence              224566788899999999999999999999987555578899999999999999999999999999852 23445556


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          260 TLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       260 ~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      .|-..+.+.|+.|+|.+.+..+..
T Consensus       488 ~Lasl~~~~g~~EkalEtL~~~~~  511 (895)
T KOG2076|consen  488 TLASLYQQLGNHEKALETLEQIIN  511 (895)
T ss_pred             hHHHHHHhcCCHHHHHHHHhcccC
Confidence            677778999999999999998653

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.42  E-value=1.5e-09  Score=85.28  Aligned_cols=227  Identities=12%  Similarity=-0.034  Sum_probs=159.8

Q ss_pred             ccHHHHHHHHHHhhhcC-CCcC--HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043969           24 GLARKVVERFIKSKLFN-FRPF--KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        24 ~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      +..+.++..+.++.... ..|+  ...|..+...+...|++++|...|++..+..+. +...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHH
Confidence            45566777777766432 2232  236888888999999999999999999987644 7889999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      ..|+...+.. +.+..++..+..++...|++++|.+.++...+..  |+..............++.++|...+.......
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            9999998764 3356778888888999999999999999998863  333222222333456788999999997755432


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC---CC--C-CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK---GQ--L-PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN  254 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~--~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  254 (300)
                       .|+.  |.. .......|+..++ +.+..+.+.   ..  . .....|..+...+.+.|++++|...|++..+.+. |+
T Consensus       196 -~~~~--~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~-~~  269 (296)
T PRK11189        196 -DKEQ--WGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV-YN  269 (296)
T ss_pred             -Cccc--cHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-ch
Confidence             2332  222 2223345555444 344444422   11  1 1245788999999999999999999999998642 35


Q ss_pred             HHHHHH
Q 043969          255 FLVYNT  260 (300)
Q Consensus       255 ~~~~~~  260 (300)
                      ..-+..
T Consensus       270 ~~e~~~  275 (296)
T PRK11189        270 FVEHRY  275 (296)
T ss_pred             HHHHHH
Confidence            444433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.40  E-value=3.9e-10  Score=92.81  Aligned_cols=243  Identities=14%  Similarity=0.132  Sum_probs=180.3

Q ss_pred             CCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhc-----C-CCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhC---
Q 043969            5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLF-----N-FRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDE---   74 (300)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~---   74 (300)
                      +.|.-..+...|...|...|+++.|..++......     | ..|... ..+.+...|...+++++|..+|+++...   
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~  273 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE  273 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            34444566777889999999999999999886554     1 134444 4455778899999999999999999763   


Q ss_pred             --CC-CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCCH-hHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 043969           75 --GY-AP-DILTYNIVMCAKYRLGKLDQFHRLLDEMGRS-----GF-SPDF-HTYNILLHVLGKGDKPLAALNLLNHMKE  143 (300)
Q Consensus        75 --~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (300)
                        |. .| -..+++.|..+|.+.|++++|..+++...+.     +. .|.. ..++.+...+...+++++|..++....+
T Consensus       274 ~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~  353 (508)
T KOG1840|consen  274 VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALK  353 (508)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence              22 12 2456777888999999999998888776332     11 2222 2356677788899999999999987654


Q ss_pred             c---CCCC----cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC----CC--CC-ccccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          144 V---GFDP----SVLHFTTLMDGLSRAGNLDACKYFFDEMANK----GC--MP-DVVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       144 ~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                      .   -+.+    -..+++.+...|...|++++|.++++.....    +.  .+ ....++.+...|.+.+++++|.++|.
T Consensus       354 i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~  433 (508)
T KOG1840|consen  354 IYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFE  433 (508)
T ss_pred             HHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHH
Confidence            2   1112    2367899999999999999999999988643    11  12 24467888889999999999999988


Q ss_pred             HHHH----CCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          210 GMIT----KGQ--LPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       210 ~~~~----~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +...    .|.  +-...+|..|...|...|++++|.++.+...
T Consensus       434 ~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  434 EAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            7543    222  2235789999999999999999999988776

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

Probab=99.39  E-value=3.7e-10  Score=89.14  Aligned_cols=259  Identities=11%  Similarity=0.029  Sum_probs=186.9

Q ss_pred             HhhccccHHHHHHHHHHhhhcCCCcCHHHHH--HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           19 TCGEVGLARKVVERFIKSKLFNFRPFKNSYN--AILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      .+.+.|+++.|++++.-....+-+.-...-+  .++..+..-+++-.|.++-+..+... .-+......-.......|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            3567888888888887665443222222222  23333333456777777776665432 11222222222334467899


Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEM  176 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (300)
                      ++|.+.+++............|++ .-.+...|+.++|++.|-++... +..+..+...+.+.|-...+..+|++++.+.
T Consensus       507 dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            999999999887643322233332 33467789999999999887654 3446778888899999999999999999887


Q ss_pred             HhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHH
Q 043969          177 ANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFL  256 (300)
Q Consensus       177 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  256 (300)
                      ... ++.|+...+.|...|-+.|+-..|.+.+-+--.- ++-+..+...|..-|....-+++++..|++..-  +.|+..
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~  660 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQS  660 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHH
Confidence            665 5667888999999999999999999877654433 556889999999999999999999999998764  689999


Q ss_pred             HHHHHHHHH-HhcCCHHHHHHHHHHHHHc
Q 043969          257 VYNTLVSNL-RNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       257 ~~~~li~~~-~~~g~~~~a~~~~~~~~~~  284 (300)
                      -|..++.+| .+.|++..|+.+++....+
T Consensus       661 kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  661 KWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            999988766 6789999999999988765

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

Probab=99.36  E-value=1.1e-09  Score=87.13  Aligned_cols=223  Identities=12%  Similarity=0.047  Sum_probs=143.7

Q ss_pred             hhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043969           20 CGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (300)
                      +.-.|+...+.+.|+........++. .|.-+..+|....+.++..+.|....+..+. ++.+|..-.....-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHH
Confidence            33456777777777776665433332 2666666777777777777777777766543 566666666666677777777


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          100 HRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ..=|++..+.. +.+...|..+.-+..+.+.+++++..|++.++. +|..+..|+.....+...++++.|.+.|+..++.
T Consensus       414 ~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  414 IADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            77777777654 334455556666666677777777788777766 5666677777777777778888888777776654


Q ss_pred             CCC-----CccccHH--HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          180 GCM-----PDVVCYT--VMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       180 ~~~-----~~~~~~~--~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ...     .+..++.  .++ .+.-.+++..|..++.+..+...+ ....|..|...-.+.|+.++|+++|++...
T Consensus       492 E~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            111     1111111  111 111236777777777777765433 455677777777777777777777776654

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

Probab=99.36  E-value=3.5e-09  Score=76.30  Aligned_cols=195  Identities=11%  Similarity=0.030  Sum_probs=115.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ..+.-.|.+.|+...|..-+++..+.. +.+..+|..+...|.+.|+.+.|.+.|++..+.. +-+-.+.|.....+|..
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhC
Confidence            334455666666666666666666553 3344556666666666666666666666666542 33445566666666666


Q ss_pred             CCHHHHHHHHHHHHhCCC-CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 043969          164 GNLDACKYFFDEMANKGC-MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                      |++++|...|+.....-. .-...+|..+.-+..+.|+.+.|...|++..+.... ...+...+.......|++-.|...
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHH
Confidence            666666666666654311 112345666666666666666666666666655322 334455566666666666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          243 MKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      ++.....+. ++..+....|+.-...|+.+.+-++=..+.
T Consensus       196 ~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         196 LERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            666665543 566666666666666666666655444443

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

Probab=99.33  E-value=1.6e-08  Score=86.79  Aligned_cols=273  Identities=14%  Similarity=0.055  Sum_probs=195.3

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCC--cCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFR--PFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNI   85 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (300)
                      -++...+.|...+.-.|++..++++...+......  .-...|..+.+++-..|++++|...|.+..+....--...+.-
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~G  347 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVG  347 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccc
Confidence            46778888999999999999999999887765321  1123688899999999999999999988877632211334455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC----ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD----KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      +...+...|+++.+...|+.+.+.. +.+..+...|...|...+    ..+.|..++.+..+.- +.|...|-.+...+.
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e  425 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLE  425 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHH
Confidence            6788999999999999999998774 556677777777777664    4566777777776653 557777877777666


Q ss_pred             hCCCHHHHHHHHHHHH----hCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCC------CHHHHHHHHH
Q 043969          162 RAGNLDACKYFFDEMA----NKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK---GQLP------NVFTYNSMIR  228 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p------~~~~~~~l~~  228 (300)
                      ...- ..++..|....    ..+..+.....|.+.......|++++|...|......   ...+      +..+--.+..
T Consensus       426 ~~d~-~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlar  504 (1018)
T KOG2002|consen  426 QTDP-WASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLAR  504 (1018)
T ss_pred             hcCh-HHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHH
Confidence            5444 34466665543    4455577788899999999999999999999887654   1222      3323344666


Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          229 GFCMAGKFDEACTMMKEMESRGCNPNF-LVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..-..++++.|.+.+..+.+.  .|+- ..|-.+.......+...+|...+++..+-+
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d  560 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID  560 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc
Confidence            777778889999999888875  3443 334444333344577888888888888765

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

Probab=99.33  E-value=3.7e-09  Score=84.17  Aligned_cols=226  Identities=12%  Similarity=0.024  Sum_probs=178.8

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHH
Q 043969           55 LLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAA  134 (300)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (300)
                      +.-.|+.-.|.+-|+..+.....+ ...|.-+..+|....+.++..+.|....+.+ +.++.+|..-.....-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            345578888999999998875543 3337777788999999999999999998886 56788898888888888999999


Q ss_pred             HHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          135 LNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      ..=|++.+... +-+...|..+.-+..+.+.++++...|++..++ ++-.+..|+.....+...++++.|.+.|+...+.
T Consensus       414 ~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  414 IADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99999998863 335566777777778889999999999999887 4556789999999999999999999999998875


Q ss_pred             CCC-----CCHHH-HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          215 GQL-----PNVFT-YNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       215 ~~~-----p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ...     .+... .+..+-.+-..+++..|.+++++..+.. +-....|..|.+.-.+.|+.++|+++|++....-
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             ccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            222     11111 1222222335689999999999999863 2245789999999999999999999999876543

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

Probab=99.31  E-value=1.5e-08  Score=73.14  Aligned_cols=207  Identities=12%  Similarity=0.008  Sum_probs=168.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      +...+.-.|...|+...|..-+++.++..+. +..+|..+...|-+.|+.+.|.+.|++..+.. +-+..+.|.....++
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            5667788899999999999999999988644 67788889999999999999999999998875 456778888888999


Q ss_pred             cCCChHHHHHHHHHHHHcCC-CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGF-DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQ  205 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  205 (300)
                      ..|++++|...|++...... .....+|..+.-+..+.|+.+.|...|+...+.. +-...+.-.+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            99999999999999887632 2234678888888899999999999999988763 224456777888888999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043969          206 DLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYN  259 (300)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  259 (300)
                      .+++.....+. ++..+....|+.-...|+.+.+.+.=..+...  -|...-+.
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q  244 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQ  244 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHH
Confidence            99999887765 78888888888888899988888776666654  44544443

>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=99.30  E-value=8.2e-10  Score=85.71  Aligned_cols=251  Identities=12%  Similarity=0.086  Sum_probs=165.3

Q ss_pred             HhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043969           19 TCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQ   98 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (300)
                      .+.-.|++.+++.... ........+......+.+++...|+++.++   .+..... +|.......+...+...++-+.
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            3444688888886665 333322233445667788888889877543   4443333 6677766666655544455566


Q ss_pred             HHHHHHHHHhCCCCCCHhHH-HHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043969           99 FHRLLDEMGRSGFSPDFHTY-NILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMA  177 (300)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (300)
                      +..-++........++..++ ......+...|++++|++++...      .+.......+..+.+.++++.|.+.++.|.
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~  158 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQ  158 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            66555554433323223333 33335677789999999887653      355666778889999999999999999998


Q ss_pred             hCCCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC
Q 043969          178 NKGCMPDVVCYTVMITSYIA----AGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP  253 (300)
Q Consensus       178 ~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (300)
                      +..   +..+...+..++..    .+.+.+|..+|+++.+. ..++..+.+.+..+....|++++|.+++.+..+.+ +-
T Consensus       159 ~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~  233 (290)
T PF04733_consen  159 QID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PN  233 (290)
T ss_dssp             CCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CC
T ss_pred             hcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cC
Confidence            753   34455555555543    33689999999998765 56788999999999999999999999999887653 33


Q ss_pred             CHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHcC
Q 043969          254 NFLVYNTLVSNLRNAGKL-AEAHEVIRHMVEKG  285 (300)
Q Consensus       254 ~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~  285 (300)
                      +..+...++.+....|+. +.+.++++++.+..
T Consensus       234 ~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~  266 (290)
T PF04733_consen  234 DPDTLANLIVCSLHLGKPTEAAERYLSQLKQSN  266 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHT
T ss_pred             CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhC
Confidence            566777777777777877 77888888888765

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.

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

Probab=99.29  E-value=2.4e-08  Score=78.09  Aligned_cols=269  Identities=9%  Similarity=-0.022  Sum_probs=157.0

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNI   85 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (300)
                      +-+......+.+.+...|+..++...|++....  .|+.. ....-.-.+.+.|+++....+...+.... +.....|-.
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV  305 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFV  305 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhh
Confidence            334444555555555555555555555554433  22221 11111122234455555444444444321 112223333


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      -........+++.|+.+-++..+.. +.+...+..-...+...+++++|.-.|+..+... |-+...|..|+..|...|.
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhch
Confidence            3333344555666666666655543 2334444444455666677777777777766542 3455677777777777777


Q ss_pred             HHHHHHHHHHHHhCCCCCccccHHHHH-HHHH-hcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHH
Q 043969          166 LDACKYFFDEMANKGCMPDVVCYTVMI-TSYI-AAGELEKAQDLFDGMITKGQLPN-VFTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li-~~~~-~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                      +.+|...-++..+. ++-+..+...+. ..+. ...--++|.+++++-...  .|+ ....+.+...|...|..+.++.+
T Consensus       384 ~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~L  460 (564)
T KOG1174|consen  384 FKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKL  460 (564)
T ss_pred             HHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHH
Confidence            77776666555443 122333333331 1111 122235667776665543  344 34567788889999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          243 MKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +++....  .||....+.|.+.+...+.+.+|+..|...+..+
T Consensus       461 Le~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  461 LEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            9988874  7899999999999999999999999999998876

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

Probab=99.28  E-value=1.1e-07  Score=78.77  Aligned_cols=265  Identities=10%  Similarity=0.052  Sum_probs=194.5

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAK   90 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (300)
                      .||..-...|.+.+.++-|..+|....+.. +-+...|......=-..|..+....+|+++...-++ ....|-.....+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHH
Confidence            345555556666666777777777666542 344557777777667778888888888888876433 555666666777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHH
Q 043969           91 YRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACK  170 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (300)
                      -..|+...|..++....+.. +.+..+|-..+..-....+++.|..+|.+....  .|+...|..-+..---.++.++|.
T Consensus       595 w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            77888888888888887764 446778888888888888888888888887764  566677776666667778888888


Q ss_pred             HHHHHHHhCCCCCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          171 YFFDEMANKGCMPD-VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       171 ~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      +++++..+.  .|+ ...|..+.+.+-+.++.+.|.+.|..-.+. .+-.+..|-.+...=-+.|..-+|..++++..-.
T Consensus       672 rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  672 RLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            888887775  344 345667777788888888888877765544 3334566777777777778888899999888765


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          250 GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       250 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      + +-+...|-..|+.=.+.|+.+.|..+..+.++.
T Consensus       749 N-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  749 N-PKNALLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             C-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3 346778888888888999999998888877764

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

Probab=99.26  E-value=2.4e-10  Score=96.78  Aligned_cols=233  Identities=14%  Similarity=0.174  Sum_probs=160.8

Q ss_pred             HHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043969           32 RFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF  111 (300)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  111 (300)
                      .+..+...|+.|+..||..+|.-|+..|+.+.|- +|..|.-...+.+...|+.++.+....++.+.+.           
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            4455666789999999999999999999999998 9999988877778899999999999999887775           


Q ss_pred             CCCHhHHHHHHHHHhcCCChHH---HHHHHHHHH----HcCCCCcHhhH--------------HHHHHHHHhCCCHHHHH
Q 043969          112 SPDFHTYNILLHVLGKGDKPLA---ALNLLNHMK----EVGFDPSVLHF--------------TTLMDGLSRAGNLDACK  170 (300)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~----~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~  170 (300)
                      .|...+|..|..+|...||...   +.+.+..+.    ..|+-.....+              ...+......|-++.+.
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqll  159 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLL  159 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHH
Confidence            5889999999999999999765   222122221    11221111111              11222223334445554


Q ss_pred             HHHHHHHhCCCCCccccHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          171 YFFDEMANKGCMPDVVCYTVMITSYIAAG-ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      +++..+....-  + .+...+++-+.... .+++-..+-+...+   .|+..+|..++.+-..+|+.+.|..++.+|.+.
T Consensus       160 kll~~~Pvsa~--~-~p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~  233 (1088)
T KOG4318|consen  160 KLLAKVPVSAW--N-APFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEK  233 (1088)
T ss_pred             HHHhhCCcccc--c-chHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHc
Confidence            44444322110  0 01111233222222 23333333333332   589999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          250 GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       250 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |++.+..-|..|+-+   .++..-+..++.-|.+.|
T Consensus       234 gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~g  266 (1088)
T KOG4318|consen  234 GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKG  266 (1088)
T ss_pred             CCCcccccchhhhhc---CccchHHHHHHHHHHHhc
Confidence            999999888888765   888888888889898887

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

Probab=99.25  E-value=1.3e-08  Score=82.50  Aligned_cols=253  Identities=12%  Similarity=0.001  Sum_probs=195.3

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      |+....+..-|..+...|+..+.+.+=.++.... +-...+|-++..-|.-.|+..+|...|.+....... =...|-.+
T Consensus       275 pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~f  352 (611)
T KOG1173|consen  275 PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAF  352 (611)
T ss_pred             CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHH
Confidence            5566667777778888888877777766666542 333448999999888899999999999988765422 24578888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      ...++-.+..|+|+..+....+.= +-...-+--+.--|.+.++.+.|.+.|.+.... .|.|+...+-+.-.....+.+
T Consensus       353 ghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y  430 (611)
T KOG1173|consen  353 GHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEY  430 (611)
T ss_pred             hHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhh
Confidence            999999999999999988775541 111112233344578899999999999999887 466788888888788888999


Q ss_pred             HHHHHHHHHHHhC--CCC----CccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 043969          167 DACKYFFDEMANK--GCM----PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       167 ~~a~~~~~~~~~~--~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  240 (300)
                      .+|...|+.....  .+.    .-..+++.|..++.+.+.+++|+..+++...... -+..++..+.-.|...|+++.|.
T Consensus       431 ~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~-k~~~~~asig~iy~llgnld~Ai  509 (611)
T KOG1173|consen  431 PEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP-KDASTHASIGYIYHLLGNLDKAI  509 (611)
T ss_pred             HHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC-CchhHHHHHHHHHHHhcChHHHH
Confidence            9999999887632  111    1234578899999999999999999999988744 48999999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043969          241 TMMKEMESRGCNPNFLVYNTLVSNLR  266 (300)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~li~~~~  266 (300)
                      +.|.+...  +.|+..+...++..+.
T Consensus       510 d~fhKaL~--l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  510 DHFHKALA--LKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHh--cCCccHHHHHHHHHHH
Confidence            99998876  5788777777766544

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

Probab=99.22  E-value=1.6e-07  Score=76.38  Aligned_cols=263  Identities=11%  Similarity=0.003  Sum_probs=153.6

Q ss_pred             HhhccccHHHHHHHHHHhhhcCCCcCHHHHHH---HHHHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHHHhcC
Q 043969           19 TCGEVGLARKVVERFIKSKLFNFRPFKNSYNA---ILHALLGIRQYKLIEWVYQQMSDEGYAP-DILTYNIVMCAKYRLG   94 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~   94 (300)
                      .+...|++++|.+.+++..... +.+...+..   ........+..+.+.+.+....  ...| .......+...+...|
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWA--PENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccC--cCCCCcHHHHHHHHHHHHHcC
Confidence            4456788888988888876653 223333332   1111222445555555555411  1223 2334445556778889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC-CCcH--hhHHHHHHHHHhCCCHHHHHH
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGF-DPSV--LHFTTLMDGLSRAGNLDACKY  171 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~  171 (300)
                      ++++|.+.+++..+.. +.+...+..+...+...|++++|...+++...... .++.  ..|..+...+...|++++|..
T Consensus       129 ~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         129 QYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            9999999999988775 44566778888888899999999999988876532 1222  234567778889999999999


Q ss_pred             HHHHHHhCCC-CCccccH-H--HHHHHHHhcCCHHHHHHH--H-HHHHHCCC-CCCHHHHHHHHHHHhccCCHHHHHHHH
Q 043969          172 FFDEMANKGC-MPDVVCY-T--VMITSYIAAGELEKAQDL--F-DGMITKGQ-LPNVFTYNSMIRGFCMAGKFDEACTMM  243 (300)
Q Consensus       172 ~~~~~~~~~~-~~~~~~~-~--~li~~~~~~~~~~~a~~~--~-~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (300)
                      +++....... .+..... +  .++.-+...|..+.+...  + ........ ............++...|+.++|..++
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         208 IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            9988754321 1111111 1  222223333432222222  1 11111100 111222235677778889999999999


Q ss_pred             HHHHHCCCC------CCHHHHHHHHH--HHHhcCCHHHHHHHHHHHHHcC
Q 043969          244 KEMESRGCN------PNFLVYNTLVS--NLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       244 ~~~~~~~~~------~~~~~~~~li~--~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +.+......      ....+-..++.  ++...|+.++|.+.+.......
T Consensus       288 ~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         288 AALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            888763211      01112222333  3568899999999998887654

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.

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

Probab=99.21  E-value=4.1e-07  Score=75.48  Aligned_cols=232  Identities=9%  Similarity=-0.020  Sum_probs=128.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      +|..-...|.+.+.++-|..+|...++-- +.+...|......=-..|..++...+++++...- +-....|-....-+-
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w  595 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKW  595 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHH
Confidence            44444444444555555555555555432 2244445444444444555666666666655541 223334444445555


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      ..|+...|..++....+.. +.+...|-+.+..-....+++.|..+|......  .|+...|.--+..-.-.++.++|++
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-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHH
Confidence            5666666666666666552 334555666666666666667777666666553  4566666655555555666677777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          207 LFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       207 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ++++..+. ++.-...|..+.+.+-+.++.+.|...|..-.+. ++.....|-.+.+.=.+.|.+-.|..++++..-++
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-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            77666654 2222345566666666666666666665443332 22233444444444456667777777777766655

>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=99.19  E-value=1.1e-07  Score=79.33  Aligned_cols=229  Identities=18%  Similarity=0.179  Sum_probs=156.8

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHH-HHHHHHHhc---
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTY-NILLHVLGK---  127 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~---  127 (300)
                      ...+...|++++|++.++.-... +.............+.+.|+.++|..++..+.+.+  |+...| ..+..+..-   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34567889999999999875544 33345566677789999999999999999999986  555554 455554422   


Q ss_pred             --CCChHHHHHHHHHHHHcCCC--------C-----------------------cHhhHHHHHHHHHhCCCHHHHHHHHH
Q 043969          128 --GDKPLAALNLLNHMKEVGFD--------P-----------------------SVLHFTTLMDGLSRAGNLDACKYFFD  174 (300)
Q Consensus       128 --~~~~~~a~~~~~~~~~~~~~--------~-----------------------~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (300)
                        ..+.+...++++++...-..        .                       -+.+|+.+-..|.......-...++.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~  167 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVE  167 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHH
Confidence              22456666677666433100        0                       01223444444444444444445555


Q ss_pred             HHHhC----C----------CCCccc--cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH
Q 043969          175 EMANK----G----------CMPDVV--CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       175 ~~~~~----~----------~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      .....    +          -.|+..  ++..+...|-..|++++|++++++.++... ..+..|..-.+.+-+.|++.+
T Consensus       168 ~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htP-t~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  168 EYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTP-TLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHCCCHHH
Confidence            44322    1          123332  345567778889999999999999988732 247788888999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          239 ACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |.+.++....... -|...-+..+..+.+.|++++|.+++......+
T Consensus       247 Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  247 AAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTRED  292 (517)
T ss_pred             HHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC
Confidence            9999999988643 255666667778899999999999999888766

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 [], [].

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

Probab=99.16  E-value=5.6e-07  Score=71.98  Aligned_cols=275  Identities=9%  Similarity=0.085  Sum_probs=165.9

Q ss_pred             CCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC-CCC-CCHhhH
Q 043969            6 FPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDE-GYA-PDILTY   83 (300)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~-~~~~~~   83 (300)
                      ..|+...|.+.++.-.+-..++.|..++++....  .|++.+|-...+.=.++|+...+..+|+...+. |-. .+...+
T Consensus       170 w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lf  247 (677)
T KOG1915|consen  170 WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILF  247 (677)
T ss_pred             CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            4688888888888888888888888888876554  577777777777777777777777777766553 100 011112


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHH--------------------------------------------HHhCCCCCCHhHHH
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDE--------------------------------------------MGRSGFSPDFHTYN  119 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~--------------------------------------------~~~~~~~~~~~~~~  119 (300)
                      .+...-=.+...++.|.-+|+-                                            +.+.+ +.|-.+|-
T Consensus       248 vaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWf  326 (677)
T KOG1915|consen  248 VAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWF  326 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHH
Confidence            2221111111222222222211                                            11111 44566777


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh--hHHHHHH--------HHHhCCCHHHHHHHHHHHHhC----------
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVGFDPSVL--HFTTLMD--------GLSRAGNLDACKYFFDEMANK----------  179 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~--------~~~~~~~~~~a~~~~~~~~~~----------  179 (300)
                      -.++.-...|+.+...++|++.... ++|-..  .|...|-        .=....+++.+.++|+...+.          
T Consensus       327 dylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaK  405 (677)
T KOG1915|consen  327 DYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAK  405 (677)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHH
Confidence            7777777788888888888888765 444221  1211111        112345666666666554432          


Q ss_pred             --------------------------CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          180 --------------------------GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       180 --------------------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                                                |..|-..+|-.-|..-.+.+++|.+..++.+..+-+.. |..+|......=...
T Consensus       406 iWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~~W~kyaElE~~L  484 (677)
T KOG1915|consen  406 IWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCYAWSKYAELETSL  484 (677)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhHHHHHHHHHHHHh
Confidence                                      23444555555555556666777777777777776433 667777777777777


Q ss_pred             CCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          234 GKFDEACTMMKEMESRGC-NPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |+.+.|..+|.-.++... .-....|.+.|.-=...|.++.|..+++++++..
T Consensus       485 gdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  485 GDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             hhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc
Confidence            888888888887776421 1223445555555577888889999998888876

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

Probab=99.16  E-value=5.3e-07  Score=73.35  Aligned_cols=270  Identities=11%  Similarity=0.050  Sum_probs=164.3

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcC-CCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFN-FRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      ...|..+...+...++.+.+...+....... ..++.. ........+...|++++|.+.+++..+..+. +...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-h
Confidence            3445556666666677777666665543322 122221 2223344567789999999999999887433 4444442 2


Q ss_pred             HHHH----hcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           88 CAKY----RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        88 ~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ..+.    ..+..+.+.+.+.... ...+........+...+...|++++|...+++..+.. +.+...+..+..++...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence            2222    2455555555555421 1112223444566678889999999999999999874 44567788888999999


Q ss_pred             CCHHHHHHHHHHHHhCCC-CCcc--ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHH-H--HHHHHHhccCCH
Q 043969          164 GNLDACKYFFDEMANKGC-MPDV--VCYTVMITSYIAAGELEKAQDLFDGMITKGQ-LPNVFTY-N--SMIRGFCMAGKF  236 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~-~--~l~~~~~~~~~~  236 (300)
                      |++++|...++....... .|+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            999999999998876532 1222  2355678889999999999999999864422 1222211 1  223333344433


Q ss_pred             HHHHHH--HHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          237 DEACTM--MKEMESRGC--NPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       237 ~~a~~~--~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ..+.++  +........  ............++...|+.+.|.+.++.+..
T Consensus       242 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~  292 (355)
T cd05804         242 DVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKG  292 (355)
T ss_pred             ChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            332222  111111111  11112223456677899999999999998876

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.

>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=99.12  E-value=8.2e-09  Score=80.21  Aligned_cols=223  Identities=13%  Similarity=0.140  Sum_probs=151.4

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAP-DILTYNIVMCAK   90 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~   90 (300)
                      ....+.+++...|+.+.++.-+..   .. .|.......+...+...++.+.+..-+++.......+ +..........+
T Consensus        37 ~~~~~~Rs~iAlg~~~~vl~ei~~---~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~  112 (290)
T PF04733_consen   37 RDFYQYRSYIALGQYDSVLSEIKK---SS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATIL  112 (290)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHS-T---TS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChhHHHHHhcc---CC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            445566778888887766544433   22 5666666656555544355556666565555443332 332223333566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH----hCCCH
Q 043969           91 YRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS----RAGNL  166 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~  166 (300)
                      ...|++++|++++...      .+.......+..+.+.++++.|.+.++.|.+..  .| .+...+..++.    ..+.+
T Consensus       113 ~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~  183 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKY  183 (290)
T ss_dssp             CCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCC
T ss_pred             HHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhH
Confidence            7789999999888642      467788888999999999999999999998753  33 33444444443    34579


Q ss_pred             HHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH-HHHHHHHHH
Q 043969          167 DACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF-DEACTMMKE  245 (300)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~  245 (300)
                      .+|..+|+++.+. ..+++.+.+.+..+....|++++|.+++.+..+.+.. +..+...++-+....|+. +.+.+.+.+
T Consensus       184 ~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  184 QDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             CHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            9999999998765 5678888999999999999999999999998776543 677777888888888887 677788888


Q ss_pred             HHHC
Q 043969          246 MESR  249 (300)
Q Consensus       246 ~~~~  249 (300)
                      +...
T Consensus       262 L~~~  265 (290)
T PF04733_consen  262 LKQS  265 (290)
T ss_dssp             CHHH
T ss_pred             HHHh
Confidence            8764

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.

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

Probab=99.08  E-value=4.2e-07  Score=81.25  Aligned_cols=233  Identities=12%  Similarity=0.150  Sum_probs=179.2

Q ss_pred             CcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhC-CCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHh
Q 043969           42 RPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDE-GYAP---DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFH  116 (300)
Q Consensus        42 ~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  116 (300)
                      .||.. .|-.-|....+.++.+.|.+++++++.. ++.-   -...|.++++.-...|.-+...++|+++.+..  ....
T Consensus      1454 sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~ 1531 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYT 1531 (1710)
T ss_pred             CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHH
Confidence            45544 7888888888999999999999998764 2211   23467777777777788888999999998762  3456


Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC---ccccHHHHHH
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP---DVVCYTVMIT  193 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~  193 (300)
                      +|..|...|.+.+..++|.++++.|.+. +......|...+..+.+.++-+.|..++.+..+.  -|   ......-.+.
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAq 1608 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQ 1608 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHH
Confidence            7889999999999999999999999887 4467788999999999999999999999888765  23   3445556666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCH
Q 043969          194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF--LVYNTLVSNLRNAGKL  271 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~  271 (300)
                      .-.+.|+.+.+..+|........+ ....|+..++.=.++|+.+.+..+|++....++.|-.  ..|...+..=-..|+-
T Consensus      1609 LEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1609 LEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             HHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCch
Confidence            677899999999999998877433 6788999999999999999999999999998877654  3455555544455665


Q ss_pred             HHHHHHHHH
Q 043969          272 AEAHEVIRH  280 (300)
Q Consensus       272 ~~a~~~~~~  280 (300)
                      +.+..+=.+
T Consensus      1688 ~~vE~VKar 1696 (1710)
T KOG1070|consen 1688 KNVEYVKAR 1696 (1710)
T ss_pred             hhHHHHHHH
Confidence            544444333

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

Probab=99.06  E-value=7.9e-08  Score=78.26  Aligned_cols=225  Identities=12%  Similarity=0.060  Sum_probs=169.4

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ..-+.+.|++.+|.-.|+..++..+. +...|..|.......++-..|+..+++..+.. +.+....-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            34456888999999999999988644 78899999999999999999999999988875 44567777888889999999


Q ss_pred             HHHHHHHHHHHHcCCCC--------cHhhHHHHHHHHHhCCCHHHHHHHHHHH-HhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          132 LAALNLLNHMKEVGFDP--------SVLHFTTLMDGLSRAGNLDACKYFFDEM-ANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       132 ~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                      ..|++.++.-+...++-        +...-..  ..+.....+....++|-++ ...+..+|......|--.|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            99999998876543110        0000000  1112222344555555544 44454577788888888888999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF-LVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      +|.+.|+..+..... |..+||.|...++...+.++|+..|++.++.  .|+. ++...|.-+|...|.+++|.+.|-..
T Consensus       448 raiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 RAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            999999999886433 7889999999999999999999999999985  5653 45555667799999999999988776


Q ss_pred             HH
Q 043969          282 VE  283 (300)
Q Consensus       282 ~~  283 (300)
                      +.
T Consensus       525 L~  526 (579)
T KOG1125|consen  525 LS  526 (579)
T ss_pred             HH
Confidence            64

>PLN02789 farnesyltranstransferase

Probab=99.04  E-value=1.8e-06  Score=68.22  Aligned_cols=226  Identities=8%  Similarity=0.011  Sum_probs=125.2

Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh-
Q 043969           54 ALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG-KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP-  131 (300)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-  131 (300)
                      .+...++.++|+.+..++++..+. +..+|+.--.++...+ ++++++..++++.... +-+..+|+.....+.+.|+. 
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchh
Confidence            334445666666666666665322 3445554444444555 4566777766666553 33444555444444444442 


Q ss_pred             -HHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc---CC----HHH
Q 043969          132 -LAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA---GE----LEK  203 (300)
Q Consensus       132 -~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~----~~~  203 (300)
                       ++++.+++.+.+.. +-+..+|+....++...|++++++..++.+++.+.. +...|+....++.+.   |.    .++
T Consensus       124 ~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        124 ANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             hHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHH
Confidence             45566666666553 335566666666666667777777777777665432 445555554444333   22    235


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhcc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC----------
Q 043969          204 AQDLFDGMITKGQLPNVFTYNSMIRGFCMA----GKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAG----------  269 (300)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----------  269 (300)
                      ++++..+++.... -|...|+-+...+...    +...+|.+.+.+..+.+ ..+......|+..|....          
T Consensus       202 el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~  279 (320)
T PLN02789        202 ELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTV  279 (320)
T ss_pred             HHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhh
Confidence            5566655555433 2556666666666552    33455666666655542 234556666777665432          


Q ss_pred             --------CHHHHHHHHHHHHHcC
Q 043969          270 --------KLAEAHEVIRHMVEKG  285 (300)
Q Consensus       270 --------~~~~a~~~~~~~~~~~  285 (300)
                              ..++|.++++.+.+.+
T Consensus       280 ~~~~~~~~~~~~a~~~~~~l~~~d  303 (320)
T PLN02789        280 DTLAEELSDSTLAQAVCSELEVAD  303 (320)
T ss_pred             hccccccccHHHHHHHHHHHHhhC
Confidence                    3467888887774333

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=6.2e-07  Score=67.57  Aligned_cols=273  Identities=11%  Similarity=0.074  Sum_probs=161.6

Q ss_pred             CccCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 043969            1 MIENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         1 m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (300)
                      |...|+....--+++++..+.+..++.+|++++....+.. +.+....+.+..+|....++..|-..++++-+.  .|..
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~   77 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPEL   77 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHH
Confidence            4455666555567778888888889999999988776653 336668888999999999999999999998776  3444


Q ss_pred             hhHHHH-HHHHHhcCCHHHHHHHHHHHHhCC-------------------C---------CC---CHhHHHHHHHHHhcC
Q 043969           81 LTYNIV-MCAKYRLGKLDQFHRLLDEMGRSG-------------------F---------SP---DFHTYNILLHVLGKG  128 (300)
Q Consensus        81 ~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~-------------------~---------~~---~~~~~~~l~~~~~~~  128 (300)
                      .-|... ...+.+.+.+..|+++...|....                   +         .|   +..+.+...-...+.
T Consensus        78 ~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllyke  157 (459)
T KOG4340|consen   78 EQYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKE  157 (459)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeecc
Confidence            444332 245556667777777666554310                   0         11   122222222334567


Q ss_pred             CChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC-------------cc----------
Q 043969          129 DKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP-------------DV----------  185 (300)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~----------  185 (300)
                      |+++.|.+-|+...+.+--.....|+..+ +..+.++...|.+...+++++|++-             |+          
T Consensus       158 gqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh  236 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLH  236 (459)
T ss_pred             ccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHH
Confidence            88999999998887754333455677665 4556788899999999988876532             11          


Q ss_pred             -----ccHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043969          186 -----VCYTVMITSYIAAGELEKAQDLFDGMITK-GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYN  259 (300)
Q Consensus       186 -----~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  259 (300)
                           ..+|.-...+.+.|+++.|.+-+-.|.-. ....|+.|...+.-.=. .+++-+..+-+.-+...+ +....||.
T Consensus       237 ~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~n-PfP~ETFA  314 (459)
T KOG4340|consen  237 QSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQN-PFPPETFA  314 (459)
T ss_pred             HHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcC-CCChHHHH
Confidence                 11233333455678888888877776432 12233444433322211 122333333333333321 12334555


Q ss_pred             HHHHHHHhcCCHHHHHHHHH
Q 043969          260 TLVSNLRNAGKLAEAHEVIR  279 (300)
Q Consensus       260 ~li~~~~~~g~~~~a~~~~~  279 (300)
                      .++-.|++..-++.|-.++-
T Consensus       315 NlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  315 NLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             HHHHHHhhhHHHhHHHHHHh
Confidence            55555555555555544443

>PF12854 PPR_1: PPR repeat

Probab=99.00  E-value=6.6e-10  Score=55.91  Aligned_cols=33  Identities=24%  Similarity=0.275  Sum_probs=22.7

Q ss_pred             CCCCCchHHHHHHHHHhhccccHHHHHHHHHHh
Q 043969            4 NGFPTTARTFNILICTCGEVGLARKVVERFIKS   36 (300)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   36 (300)
                      +|++||..+|++||++|++.|+.++|.++|++|
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            366677777777777777777777777776665

>PLN02789 farnesyltranstransferase

Probab=98.99  E-value=3.2e-06  Score=66.80  Aligned_cols=215  Identities=8%  Similarity=0.056  Sum_probs=156.3

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCH-HHHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFRPFK-NSYNAILHALLGIR-QYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ++..+-..+...+..++|+....+....  .|+. .+|+.-..++...| .+++++..++++.+..++ +..+|+.-...
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHH
Confidence            3445556667778899999999998876  3443 36766666666777 579999999999988655 66677766555


Q ss_pred             HHhcCCH--HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC---C
Q 043969           90 KYRLGKL--DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA---G  164 (300)
Q Consensus        90 ~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~  164 (300)
                      +.+.++.  ++++.+++.+.+.. +-+..+|+....++...|+++++++.++++.+... .+...|+.....+.+.   |
T Consensus       116 l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhccccc
Confidence            6666653  67888888888775 45788999999999999999999999999998764 3556666665555443   2


Q ss_pred             CH----HHHHHHHHHHHhCCCCCccccHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          165 NL----DACKYFFDEMANKGCMPDVVCYTVMITSYIAA----GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       165 ~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      ..    +.........+... +-|...|+.+...+...    ++..+|.+++.+..+.++ .+......|+..|+..
T Consensus       194 ~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d~~~~~  268 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NHVFALSDLLDLLCEG  268 (320)
T ss_pred             cccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-CcHHHHHHHHHHHHhh
Confidence            22    45666666666553 34778888888888773    445678888888776543 3677888889988763

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

Probab=98.98  E-value=1.4e-06  Score=78.16  Aligned_cols=236  Identities=14%  Similarity=0.089  Sum_probs=183.6

Q ss_pred             CCCchHHHHHHHHHhhccccHHHHHHHHHHhhh-cCCCcCHH---HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh
Q 043969            6 FPTTARTFNILICTCGEVGLARKVVERFIKSKL-FNFRPFKN---SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDIL   81 (300)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (300)
                      -|-+...|-..|....+.++.++|.++.++... .+++-...   .|.++++.-...|.-+...++|+++.+..  -...
T Consensus      1454 sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~ 1531 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYT 1531 (1710)
T ss_pred             CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHH
Confidence            355667788888889999999999999998754 22222222   77888887777888899999999998863  2356


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC--cHhhHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDP--SVLHFTTLMDG  159 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~  159 (300)
                      .|..|...|.+.+.+++|.++++.|.+.= .....+|...+..+.+.++-++|..++.+..+. ++-  ........+..
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS-LPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-cchhhhHHHHHHHHHH
Confidence            78889999999999999999999997752 357889999999999999999999999998875 222  23344555666


Q ss_pred             HHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCCHH
Q 043969          160 LSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV--FTYNSMIRGFCMAGKFD  237 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~  237 (300)
                      -.+.|+.+.++.+|+...... +--...|+..|..-.++|+.+.+..+|++....++.|--  ..|...+..=-+.|+-+
T Consensus      1610 EFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            788999999999999988763 336778999999999999999999999999998876643  45666666555666655


Q ss_pred             HHHHHHHHH
Q 043969          238 EACTMMKEM  246 (300)
Q Consensus       238 ~a~~~~~~~  246 (300)
                      .+..+=.+.
T Consensus      1689 ~vE~VKarA 1697 (1710)
T KOG1070|consen 1689 NVEYVKARA 1697 (1710)
T ss_pred             hHHHHHHHH
Confidence            555443333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.96  E-value=4.9e-07  Score=68.96  Aligned_cols=58  Identities=12%  Similarity=0.049  Sum_probs=29.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESRG--CNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +...+.+.|++++|...+++..+..  -+.....+..+..++...|++++|..+++.+..
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3344555555555555555555431  111234455555555555666655555555543

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).

>PF12854 PPR_1: PPR repeat

Probab=98.96  E-value=1e-09  Score=55.20  Aligned_cols=30  Identities=47%  Similarity=0.915  Sum_probs=12.4

Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDG  210 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  210 (300)
                      +.||..+|+.||.+|++.|++++|.++|++
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            334444444444444444444444444443

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

Probab=98.95  E-value=5.1e-07  Score=73.71  Aligned_cols=249  Identities=11%  Similarity=0.029  Sum_probs=185.8

Q ss_pred             HhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043969           19 TCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQ   98 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (300)
                      .+.+.|+..+|.-.|+.....+ +-+...|..|.......++-..|+..+++..+..+. |....-.|.-.|...|.-.+
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHH
Confidence            4567888999999999877764 455669999999999999999999999999988644 78888888889999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHH-----------HHHhcCCChHHHHHHHHHH-HHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           99 FHRLLDEMGRSGFSPDFHTYNILL-----------HVLGKGDKPLAALNLLNHM-KEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      |...++.-..... |    |..+.           ..+..........++|-++ ...+..+|+.....|.-.|--.|++
T Consensus       372 Al~~L~~Wi~~~p-~----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  372 ALKMLDKWIRNKP-K----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             HHHHHHHHHHhCc-c----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            9999988755431 1    00000           1112222233444555544 3445457778888888889999999


Q ss_pred             HHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          167 DACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN-VFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      ++|.+.|+...... +-|...||.|...++...+.++|+.-|++.++.  +|+ +.+...|..+|...|.+++|.+.|-.
T Consensus       447 draiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  447 DRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            99999999998763 336788999999999999999999999999985  455 34556688889999999999998876


Q ss_pred             HHHC---C------CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 043969          246 MESR---G------CNPNFLVYNTLVSNLRNAGKLAEAHEV  277 (300)
Q Consensus       246 ~~~~---~------~~~~~~~~~~li~~~~~~g~~~~a~~~  277 (300)
                      .+..   +      ..++...|.+|=.++.-.++.|.+.+.
T Consensus       524 AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  524 ALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            6532   1      123445777777777777877755443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.95  E-value=6.6e-07  Score=68.24  Aligned_cols=169  Identities=8%  Similarity=-0.012  Sum_probs=128.7

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH--hh
Q 043969           78 PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDF---HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV--LH  152 (300)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  152 (300)
                      .....+......+...|++++|...++++.... +.+.   .++..+..++...|++++|...++++.+.......  .+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            356677788888999999999999999987763 2222   46677888999999999999999999886322111  14


Q ss_pred             HHHHHHHHHhC--------CCHHHHHHHHHHHHhCCCCCccc-cHH-----------------HHHHHHHhcCCHHHHHH
Q 043969          153 FTTLMDGLSRA--------GNLDACKYFFDEMANKGCMPDVV-CYT-----------------VMITSYIAAGELEKAQD  206 (300)
Q Consensus       153 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~-----------------~li~~~~~~~~~~~a~~  206 (300)
                      +..+..++...        |+.++|...++.+...  .|+.. .+.                 .+...+.+.|++++|..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~  187 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAIN  187 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            55555556554        7899999999999876  34432 221                 34456778899999999


Q ss_pred             HHHHHHHCCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          207 LFDGMITKGQ--LPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       207 ~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .+....+...  +.....+..+..++...|++++|...++.+...
T Consensus       188 ~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       188 RFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999987632  224578899999999999999999999888764

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).

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.94  E-value=5.9e-06  Score=61.34  Aligned_cols=264  Identities=12%  Similarity=0.086  Sum_probs=167.8

Q ss_pred             cCCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhh
Q 043969            3 ENGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILT   82 (300)
Q Consensus         3 ~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (300)
                      ..+..|+...|+  ++.+.-.|++.+++..-.......  -+...-.-+-++|...|++.....   +.+.. -.|....
T Consensus         3 ~~~~g~~d~LF~--iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~---eI~~~-~~~~lqA   74 (299)
T KOG3081|consen    3 SMEAGPEDELFN--IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVIS---EIKEG-KATPLQA   74 (299)
T ss_pred             ccccCcchhHHH--HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccc---ccccc-cCChHHH
Confidence            334445544454  344455688888887776654432  223333445667777776654432   22222 2444444


Q ss_pred             HHHHHHHHHhcCCHHHHH-HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           83 YNIVMCAKYRLGKLDQFH-RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      ...+.......++.+.-. ++.+.+.......+......-...|...+++++|++......      +......=+..+.
T Consensus        75 vr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~l  148 (299)
T KOG3081|consen   75 VRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILL  148 (299)
T ss_pred             HHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHH
Confidence            444444444445544443 344555444333333444444557889999999998887632      2233333345667


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA----AGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFD  237 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  237 (300)
                      +..+.+.|...++.|.+..   +..|.+.|..++.+    .+.+..|.-+|++|.++ ..|+..+.+....++...|+++
T Consensus       149 k~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~e  224 (299)
T KOG3081|consen  149 KMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYE  224 (299)
T ss_pred             HHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHH
Confidence            7788899999999998752   66677777777665    45688999999999876 6789999999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHcC
Q 043969          238 EACTMMKEMESRGCNPNFLVYNTLVSNLRNAGK-LAEAHEVIRHMVEKG  285 (300)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~~  285 (300)
                      +|..++++...... .++.+...++..-...|. .+-..+.+.+++...
T Consensus       225 eAe~lL~eaL~kd~-~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  225 EAESLLEEALDKDA-KDPETLANLIVLALHLGKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             HHHHHHHHHHhccC-CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC
Confidence            99999999988643 355666666555445554 455567777777665

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

Probab=98.90  E-value=4.2e-07  Score=76.19  Aligned_cols=217  Identities=12%  Similarity=0.118  Sum_probs=164.8

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK  127 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (300)
                      -..+...+.+.|-...|..+|+++         ..|..++.+|...|+.++|..+..+..+.  +||+..|..+.+....
T Consensus       401 q~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  401 QRLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccC
Confidence            355667777888888888888764         45677888899999999999988887774  7899999999888877


Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHH
Q 043969          128 GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDL  207 (300)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  207 (300)
                      ..-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+ +.-..+|-..--+..+.++++.|.+.
T Consensus       470 ~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHH
Confidence            77788888887765432       11122222334688888888888776653 33556777777778888999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          208 FDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       208 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |........ -+...||.+-.+|.+.++-.+|...+.+..+-+ .-+...|...+....+.|.+++|.+.+.++.+..
T Consensus       542 F~rcvtL~P-d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  542 FHRCVTLEP-DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHhhcCC-CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            988876532 257789999999999999999999999988876 4455667777777889999999999998887654

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

Probab=98.88  E-value=1.5e-06  Score=64.26  Aligned_cols=160  Identities=14%  Similarity=0.086  Sum_probs=110.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ..+-..+...|+-+....+........ +.|.......+....+.|++..|...+.+..... ++|...|+.+.-+|.+.
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            445566666777777776666643321 3455555667777777888888888888777653 66777788888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM  243 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (300)
                      |+.+.|..-|.+..+.. .-+...++.+.-.+.-.|+.+.|..++......+.. |...-..+.......|++++|..+.
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 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            88888888887777652 224556677777777788888888888777766433 5666667777777788888887776


Q ss_pred             HHHH
Q 043969          244 KEME  247 (300)
Q Consensus       244 ~~~~  247 (300)
                      ..-.
T Consensus       226 ~~e~  229 (257)
T COG5010         226 VQEL  229 (257)
T ss_pred             cccc
Confidence            5433

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

Probab=98.87  E-value=7.8e-07  Score=74.63  Aligned_cols=239  Identities=12%  Similarity=0.069  Sum_probs=178.0

Q ss_pred             CCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH
Q 043969            5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      ++||--..=..+...+...|-...|+.++++..         .|.-.+-+|...|+..+|..+..+..++  +||...|.
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc  461 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYC  461 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHH
Confidence            344444444555677778888999999998853         5667788899999999999999888874  77888998


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG  164 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (300)
                      .+........-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.. +....+|-.+.-+..+.+
T Consensus       462 ~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  462 LLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLE  533 (777)
T ss_pred             HhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHh
Confidence            8888776666788888887765332       11122222334788999999998877763 456678888888888999


Q ss_pred             CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 043969          165 NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMK  244 (300)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (300)
                      +++.|.+.|..-.... +-+...||.+-.+|.+.++-.+|...+++..+.+ .-+...|...+-.....|.+++|.+.+.
T Consensus       534 k~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~  611 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYH  611 (777)
T ss_pred             hhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHH
Confidence            9999999998887652 2356789999999999999999999999998876 3366778888888889999999999998


Q ss_pred             HHHHCCC-CCCHHHHHHHHHH
Q 043969          245 EMESRGC-NPNFLVYNTLVSN  264 (300)
Q Consensus       245 ~~~~~~~-~~~~~~~~~li~~  264 (300)
                      ++.+... ..|......++..
T Consensus       612 rll~~~~~~~d~~vl~~iv~~  632 (777)
T KOG1128|consen  612 RLLDLRKKYKDDEVLLIIVRT  632 (777)
T ss_pred             HHHHhhhhcccchhhHHHHHH
Confidence            8875311 1244444444443

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

Probab=98.85  E-value=3.9e-06  Score=62.12  Aligned_cols=167  Identities=13%  Similarity=0.119  Sum_probs=136.2

Q ss_pred             CHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHH
Q 043969          114 DFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMIT  193 (300)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  193 (300)
                      |..+ ..+-..+...|+-+....+....... .+.+......++....+.|++..|...+++..... ++|..+|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4455 66667788888888888887776543 34465666778899999999999999999998763 678999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043969          194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAE  273 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  273 (300)
                      +|-+.|++++|..-|.+..+.... +...++.+...+.-.|+.+.|..++......+. -|...-..+..+....|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHH
Confidence            999999999999999999987433 567788899999999999999999999887643 366777778888899999999


Q ss_pred             HHHHHHHHHHcC
Q 043969          274 AHEVIRHMVEKG  285 (300)
Q Consensus       274 a~~~~~~~~~~~  285 (300)
                      |..+...-...-
T Consensus       221 A~~i~~~e~~~~  232 (257)
T COG5010         221 AEDIAVQELLSE  232 (257)
T ss_pred             HHhhccccccch
Confidence            998876655443

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

Probab=98.82  E-value=3.8e-06  Score=61.82  Aligned_cols=119  Identities=12%  Similarity=0.145  Sum_probs=67.8

Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHH-HhcCC--HHHH
Q 043969          128 GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY-IAAGE--LEKA  204 (300)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~--~~~a  204 (300)
                      .++.+++...++...+.. +.+...|..+...|...|+++.|...|+...+.. +.+...+..+..++ ...|+  .++|
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            444455555555555442 4455566666666666666666666666665542 22444555555542 44454  3666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          205 QDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .+++++..+.+.. +..++..+...+.+.|++++|...|+++.+.
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            6666666665333 5556666666666666666666666666654

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

Probab=98.82  E-value=6.3e-07  Score=65.95  Aligned_cols=160  Identities=9%  Similarity=0.019  Sum_probs=122.0

Q ss_pred             HHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043969           18 CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLD   97 (300)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (300)
                      -.|...|+++.+.........    |.        ..+...++.+++...++...+..+. |...|..+...+...|+++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHH
Confidence            457788998887655533211    11        0222366778888888888877644 8899999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHH-HhcCCC--hHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHH
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHV-LGKGDK--PLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFD  174 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (300)
                      +|...+++..+.. +.+...+..+..+ +...|+  .++|.+++++..+.. +.+...+..+...+.+.|++++|...|+
T Consensus        91 ~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         91 NALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999998875 4577788888876 467777  599999999999874 4477888889999999999999999999


Q ss_pred             HHHhCCCCCccccHHHHHHH
Q 043969          175 EMANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       175 ~~~~~~~~~~~~~~~~li~~  194 (300)
                      .+.+.. +|+..- ..+|.+
T Consensus       169 ~aL~l~-~~~~~r-~~~i~~  186 (198)
T PRK10370        169 KVLDLN-SPRVNR-TQLVES  186 (198)
T ss_pred             HHHhhC-CCCccH-HHHHHH
Confidence            998873 445444 344454

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

Probab=98.82  E-value=6.4e-06  Score=72.74  Aligned_cols=212  Identities=8%  Similarity=0.032  Sum_probs=121.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH------------------HHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRL------------------LDEMGR  108 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~------------------~~~~~~  108 (300)
                      .+..|+..+...+++++|.++.+...+..+. ....|-.+...+.+.++.+++..+                  ...+..
T Consensus        33 a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~  111 (906)
T PRK14720         33 ELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILL  111 (906)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHh
Confidence            5555666665666666666666554444211 222222222234444443333332                  222222


Q ss_pred             CCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccH
Q 043969          109 SGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCY  188 (300)
Q Consensus       109 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (300)
                      .  .-+...+..+..+|.+.|+.+++..+|+++.+.. +.++.+.|.+...|... ++++|..++......-+  +..-|
T Consensus       112 ~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~~kq~  185 (906)
T PRK14720        112 Y--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--KKKQY  185 (906)
T ss_pred             h--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--hhhcc
Confidence            2  1233566777788888899999999999988876 55778888888888888 88888888887765411  11112


Q ss_pred             HHHHHHHH-----hcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          189 TVMITSYI-----AAGELEKAQDLFDGMITK-GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLV  262 (300)
Q Consensus       189 ~~li~~~~-----~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  262 (300)
                      +.+...+.     ...+++.-..+.+.+... |..--..++-.+-..|-..++++++..+++.+.+.. +-|.....-++
T Consensus       186 ~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~  264 (906)
T PRK14720        186 VGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELI  264 (906)
T ss_pred             hHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHH
Confidence            22211111     112233333333333332 222234455666677888888999999999988863 33566677777


Q ss_pred             HHHH
Q 043969          263 SNLR  266 (300)
Q Consensus       263 ~~~~  266 (300)
                      .+|.
T Consensus       265 ~~y~  268 (906)
T PRK14720        265 RFYK  268 (906)
T ss_pred             HHHH
Confidence            7765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.81  E-value=2.2e-05  Score=72.09  Aligned_cols=268  Identities=13%  Similarity=0.031  Sum_probs=175.4

Q ss_pred             HHhhccccHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHHHccCcHHHHHHHHHHhhhC----CCC-CCHhhHHHHHH
Q 043969           18 CTCGEVGLARKVVERFIKSKLFNFRPFK----NSYNAILHALLGIRQYKLIEWVYQQMSDE----GYA-PDILTYNIVMC   88 (300)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~   88 (300)
                      ..+...|++++|...+++........+.    ...+.+...+...|+++.|...+++....    |.. +...++..+..
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            4456788999999999886553111121    24566667778899999999999888753    111 11234455667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC----CCC--C-CHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC--CCC--cHhhHHHHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRS----GFS--P-DFHTYNILLHVLGKGDKPLAALNLLNHMKEVG--FDP--SVLHFTTLM  157 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~  157 (300)
                      .+...|++++|...+++....    +..  + ....+..+...+...|++++|...+.+.....  ..+  ....+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            788899999999998776442    211  1 12334455566777899999999988875531  111  233445566


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhCCCCC-ccccH-----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHH
Q 043969          158 DGLSRAGNLDACKYFFDEMANKGCMP-DVVCY-----TVMITSYIAAGELEKAQDLFDGMITKGQLPN---VFTYNSMIR  228 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~  228 (300)
                      ..+...|+.+.|.+.+.......... ....+     ...+..+...|+.+.|...+...........   ...+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            77888999999999998875421110 11111     1122444568899999999877554321111   112456777


Q ss_pred             HHhccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          229 GFCMAGKFDEACTMMKEMESR----GCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ++...|++++|...+++....    |..+. ..+...+..++.+.|+.++|...+.+..+..
T Consensus       700 ~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            888999999999999988753    33222 2455666678899999999999999998754

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

Probab=98.80  E-value=3.8e-05  Score=61.88  Aligned_cols=256  Identities=9%  Similarity=0.033  Sum_probs=189.0

Q ss_pred             ccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043969           22 EVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHR  101 (300)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (300)
                      ..+++..|..+|++....+ ..+...|---+..=.+.++...|..+++..+..-+..| ..|.-.+..=-..|++..|.+
T Consensus        85 sq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHH
Confidence            3567888999999988765 55666777788888899999999999999987643333 344445545556799999999


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC-C
Q 043969          102 LLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK-G  180 (300)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~  180 (300)
                      +|+.-..-  .|+...|.+.++.-.+-..++.|..++++..-.  .|++.+|-.....=-++|+...+..+|+...+. |
T Consensus       163 iferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~  238 (677)
T KOG1915|consen  163 IFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLG  238 (677)
T ss_pred             HHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh
Confidence            99988776  799999999999999999999999999998864  589999999999899999999999999888764 1


Q ss_pred             C-CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCCHHHHHHH--------HHHHHHC
Q 043969          181 C-MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN--VFTYNSMIRGFCMAGKFDEACTM--------MKEMESR  249 (300)
Q Consensus       181 ~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~--------~~~~~~~  249 (300)
                      - ..+...+.++..--.++..++.|.-+|+-..+. ++-+  ...|..+...=-+-|+.......        ++.+...
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~  317 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSK  317 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHh
Confidence            0 112334444444445577889999999988876 3223  44555555444445554433332        2233332


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          250 GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       250 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                       -+.|-.+|.-.++.-...|+.+...+++++.+.+-
T Consensus       318 -np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv  352 (677)
T KOG1915|consen  318 -NPYNYDSWFDYLRLEESVGDKDRIRETYERAIANV  352 (677)
T ss_pred             -CCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC
Confidence             24567788888888888899999999999998764

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.79  E-value=1.4e-05  Score=59.43  Aligned_cols=226  Identities=14%  Similarity=0.138  Sum_probs=148.2

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHH-HHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKL-IEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      ++..--.+-++|...|.+...+.-.....    .|.......+......-++.+. ..++.+.+.......+......-.
T Consensus        40 ~~e~d~y~~raylAlg~~~~~~~eI~~~~----~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa  115 (299)
T KOG3081|consen   40 DVELDVYMYRAYLALGQYQIVISEIKEGK----ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAA  115 (299)
T ss_pred             hhHHHHHHHHHHHHccccccccccccccc----CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhh
Confidence            33344445566666666655544433321    3333344444333333444333 334555555554443434444445


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh----C
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR----A  163 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  163 (300)
                      ..|...+++++|++.....      .+......=+..+.+..+.+-|.+.+++|.+..   +..+.+.|.++|.+    .
T Consensus       116 ~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             HHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccc
Confidence            6788999999999988762      244444444556677888999999999998752   55666766666654    5


Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH-HHHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF-DEACTM  242 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~  242 (300)
                      +.+..|.-+|++|.++ ..|+..+.+-...++...|++++|..++++...+... ++.+...++-+-...|.. +-..+.
T Consensus       187 ek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             hhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHH
Confidence            6789999999999875 5789999999999999999999999999999988555 566666666555555554 445556


Q ss_pred             HHHHHHC
Q 043969          243 MKEMESR  249 (300)
Q Consensus       243 ~~~~~~~  249 (300)
                      +..+...
T Consensus       265 l~QLk~~  271 (299)
T KOG3081|consen  265 LSQLKLS  271 (299)
T ss_pred             HHHHHhc
Confidence            6666653

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

Probab=98.79  E-value=2.2e-05  Score=62.11  Aligned_cols=237  Identities=12%  Similarity=0.002  Sum_probs=155.9

Q ss_pred             CcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHH
Q 043969           42 RPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNIL  121 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (300)
                      +-|+.....+...+...|+.++|+..|++..-..+. +........-.+.+.|+.+....+...+.... .-+...|-.-
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            445557777888888888888888888877654211 22233333344566778877777777765432 2233444444


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCH
Q 043969          122 LHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGEL  201 (300)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  201 (300)
                      ........+++.|+.+-++.++.. +.+...+-.-...+...+++++|.-.|+..+... +-+...|.-|+.+|...|++
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchH
Confidence            444555677888888888777653 2344455555566778889999988888877652 23677899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHH-HHHh-ccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHH
Q 043969          202 EKAQDLFDGMITKGQLPNVFTYNSMI-RGFC-MAGKFDEACTMMKEMESRGCNPNF-LVYNTLVSNLRNAGKLAEAHEVI  278 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~  278 (300)
                      .+|..+-+...+. ..-+..+...+. ..|. ....-++|.++++.-...  .|+- .....+...+...|..+++..++
T Consensus       385 kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  385 KEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            9988777765554 233555554442 2222 223457788888776654  5553 45566677788999999999999


Q ss_pred             HHHHHcC
Q 043969          279 RHMVEKG  285 (300)
Q Consensus       279 ~~~~~~~  285 (300)
                      ++.+..-
T Consensus       462 e~~L~~~  468 (564)
T KOG1174|consen  462 EKHLIIF  468 (564)
T ss_pred             HHHHhhc
Confidence            8877643

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.79  E-value=5.6e-06  Score=72.06  Aligned_cols=146  Identities=11%  Similarity=0.065  Sum_probs=111.3

Q ss_pred             CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHH
Q 043969          112 SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVM  191 (300)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (300)
                      +.+...+..|.....+.|.+++|..+++...+.. |-+......+...+.+.+++++|...++...... +-+......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            4567888888888888899999999999888862 3345667777888888999999999888888763 2244556677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          192 ITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTL  261 (300)
Q Consensus       192 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  261 (300)
                      ..++.+.|++++|..+|+++...+. -+..++..+..++...|+.++|...|+...+. ..|....|+..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~  228 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRR  228 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHH
Confidence            7788888999999999998887432 24778888888888889999999999888875 23444554443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.79  E-value=3e-05  Score=59.90  Aligned_cols=270  Identities=10%  Similarity=0.038  Sum_probs=174.4

Q ss_pred             CchHHHHHHH---HHhhccccHHHHHHHHHHhhhcCCCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--Hh
Q 043969            8 TTARTFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD--IL   81 (300)
Q Consensus         8 ~~~~~~~~ll---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~   81 (300)
                      .|+..|.++.   ..|...|+.+-|+.-+.+..+.  +||-. .-..-...+.+.|+++.|..-|+..++.....+  ..
T Consensus        67 ~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~e  144 (504)
T KOG0624|consen   67 GDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLE  144 (504)
T ss_pred             CCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHH
Confidence            3444444443   2345555555555555555443  56543 222334456788888888888888887643211  11


Q ss_pred             hH------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc
Q 043969           82 TY------------NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS  149 (300)
Q Consensus        82 ~~------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  149 (300)
                      .+            ...+..+...|+...|+.....+.+.. +-|...+..-..+|...|++..|+.-++...+..- .+
T Consensus       145 aqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-Dn  222 (504)
T KOG0624|consen  145 AQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DN  222 (504)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cc
Confidence            11            122334556788888888888887664 45777777888888888888888887777766543 34


Q ss_pred             HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccH----HHH---------HHHHHhcCCHHHHHHHHHHHHHCCC
Q 043969          150 VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCY----TVM---------ITSYIAAGELEKAQDLFDGMITKGQ  216 (300)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l---------i~~~~~~~~~~~a~~~~~~~~~~~~  216 (300)
                      ..++-.+-..+...|+.+.++...++..+.  .||...+    -.+         +......++|.++++-.+...+...
T Consensus       223 Te~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep  300 (504)
T KOG0624|consen  223 TEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEP  300 (504)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence            455555666777788888888888777665  3443221    111         1223345667777777777666533


Q ss_pred             CCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          217 LPN---VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       217 ~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ...   ...+..+-.++...+++.+|++...+..+.  .|+ ..++.--..+|.-...+|.|..-|++..+.+
T Consensus       301 ~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  301 EETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             cccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            211   233455666777888999999999998874  444 6777777788888888999999998888766

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

Probab=98.78  E-value=2.4e-05  Score=65.16  Aligned_cols=187  Identities=10%  Similarity=0.086  Sum_probs=77.8

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRL  102 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (300)
                      .|+-++|.+........+ .-+.++|..+.-.+...+++++|++.|+.+...+.. |...+.-+.-.-++.++++.....
T Consensus        54 lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   54 LGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             ccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHH
Confidence            344444444444433322 222234444444444444455555555544444322 444444444444444444444444


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcHhhHHHHH------HHHHhCCCHHHHHHHHHH
Q 043969          103 LDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG-FDPSVLHFTTLM------DGLSRAGNLDACKYFFDE  175 (300)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~  175 (300)
                      ...+.+.. +.....|..+..++.-.|+...|..++++..+.. ..|+...+.-..      ....+.|..+.|.+.+..
T Consensus       132 r~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~  210 (700)
T KOG1156|consen  132 RNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLD  210 (700)
T ss_pred             HHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHh
Confidence            44443332 1223334444444444555555555555544432 123333222111      122334444444444433


Q ss_pred             HHhCCCCCccccH-HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          176 MANKGCMPDVVCY-TVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       176 ~~~~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      -...  ..|...+ ..-...+.+.+++++|..++..+...
T Consensus       211 ~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r  248 (700)
T KOG1156|consen  211 NEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER  248 (700)
T ss_pred             hhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh
Confidence            3222  1111111 22233445556666666666666554

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

Probab=98.77  E-value=6.6e-05  Score=62.67  Aligned_cols=169  Identities=12%  Similarity=0.084  Sum_probs=102.8

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      -+.++|..+.-.+....++++|+..+......+ +-|...|.-+--.-++.|+++.......++.+..+. ....|..+.
T Consensus        73 ~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~A  150 (700)
T KOG1156|consen   73 KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFA  150 (700)
T ss_pred             ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHH
Confidence            356778888888888889999999999988765 455667776666667778888877777777766322 455677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC-CCCCHhHHHHHHH------HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSG-FSPDFHTYNILLH------VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGL  160 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (300)
                      .++.-.|+...|..+++...+.. -.|+...+.....      ...+.|.++.|++.+..-... +......-..-...+
T Consensus       151 vs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~  229 (700)
T KOG1156|consen  151 VAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLL  229 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHH
Confidence            77778888888888888876654 2355555443322      223445555554444433322 111111112223334


Q ss_pred             HhCCCHHHHHHHHHHHHhC
Q 043969          161 SRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~  179 (300)
                      .+.+++++|..++..+...
T Consensus       230 ~kl~~lEeA~~~y~~Ll~r  248 (700)
T KOG1156|consen  230 MKLGQLEEAVKVYRRLLER  248 (700)
T ss_pred             HHHhhHHhHHHHHHHHHhh
Confidence            4455555555555555444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.77  E-value=1.8e-05  Score=69.27  Aligned_cols=194  Identities=14%  Similarity=0.165  Sum_probs=118.3

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      .+..|..+..+-.+.|.+.+|++-|-+.      .|+..|..+++...+.|.+++-.+.+....+..-+|...  +.|+-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            4567777888877888887777655432      367778888888888888888888887777765555544  46777


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCcccc--------------------------HHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          159 GLSRAGNLDACKYFFDEMANKGCMPDVVC--------------------------YTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------------------------~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      +|++.+++.+.+.++.       -|+...                          |..|...+...|++..|.+.-++. 
T Consensus      1175 AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA- 1246 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA- 1246 (1666)
T ss_pred             HHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc-
Confidence            8888877766554431       233333                          334444444444444444333221 


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cChH
Q 043969          213 TKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE-----KGKY  287 (300)
Q Consensus       213 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~  287 (300)
                           -+..||-.+-.+|...+.+.-|     .|...++-....-...++..|...|-+++...+++..+.     .|.|
T Consensus      1247 -----ns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmf 1316 (1666)
T KOG0985|consen 1247 -----NSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMF 1316 (1666)
T ss_pred             -----cchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHH
Confidence                 1445566555565555544333     233333344455567777888888888887777776543     2366


Q ss_pred             HHHHHHhhhhh
Q 043969          288 IHLVSKFKRYK  298 (300)
Q Consensus       288 ~~l~~~~~~~~  298 (300)
                      ..+.-.|++|+
T Consensus      1317 TELaiLYskyk 1327 (1666)
T KOG0985|consen 1317 TELAILYSKYK 1327 (1666)
T ss_pred             HHHHHHHHhcC
Confidence            66666666553

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.77  E-value=2.6e-05  Score=57.65  Aligned_cols=188  Identities=14%  Similarity=0.149  Sum_probs=119.0

Q ss_pred             cCcHHHHHHHHHHhhhC---C-CCCCHhh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChH
Q 043969           58 IRQYKLIEWVYQQMSDE---G-YAPDILT-YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPL  132 (300)
Q Consensus        58 ~~~~~~a~~~~~~~~~~---~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (300)
                      ..+.++..+++.+++..   | ..++..+ |..++-+....|+.+.|..+++.+...- +-+..+-..-...+-..|.++
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            35667777777777642   3 3444443 4445556667778888888888776652 333333333333445567788


Q ss_pred             HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          133 AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      +|+++++.+.+.. |.|..++-.-+...-..|+.-+|++-+....+. +..|...|..+...|...|++++|.-.++++.
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            8888888887764 445556655555666667666777777776665 45577788888888888888888888888777


Q ss_pred             HCCCCCCHHHHHHHHHHHhccC---CHHHHHHHHHHHHHC
Q 043969          213 TKGQLPNVFTYNSMIRGFCMAG---KFDEACTMMKEMESR  249 (300)
Q Consensus       213 ~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  249 (300)
                      -.. +.+...+..+...+.-.|   +.+.+.+.+.+..+.
T Consensus       182 l~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  182 LIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            642 224455555655554443   455667777776664

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

Probab=98.73  E-value=7.8e-06  Score=72.21  Aligned_cols=214  Identities=9%  Similarity=0.015  Sum_probs=147.3

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCC----------
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYA----------   77 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------   77 (300)
                      +...+..|+..+...+++++|.++.+.....  .|+.. .|..+...+.+.++.+.+..+  .+...-..          
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~  105 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHI  105 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHHH
Confidence            5677899999999999999999999976665  45544 455555567777777666655  33332111          


Q ss_pred             --------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc
Q 043969           78 --------PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS  149 (300)
Q Consensus        78 --------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  149 (300)
                              -+..++..+..+|-+.|+.+++..+|+++.+.. +-|+.+.+.+...|... +.++|.+++.+....-+  +
T Consensus       106 ~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~  181 (906)
T PRK14720        106 CDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--K  181 (906)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--h
Confidence                    122566677888889999999999999999987 66788999999999999 99999999988876511  1


Q ss_pred             HhhHHHHHHHHH-----hCCCHHHHHHHHHHHHhC-CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043969          150 VLHFTTLMDGLS-----RAGNLDACKYFFDEMANK-GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTY  223 (300)
Q Consensus       150 ~~~~~~l~~~~~-----~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  223 (300)
                      ..-|+.+...+.     ...+.+.-..+.+.+... |..--..++-.+...|-..++++++..+++.+.+.... |....
T Consensus       182 ~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~  260 (906)
T PRK14720        182 KKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAR  260 (906)
T ss_pred             hhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhH
Confidence            112222222211     122333444444444333 32334456667778888899999999999999987443 66677


Q ss_pred             HHHHHHHh
Q 043969          224 NSMIRGFC  231 (300)
Q Consensus       224 ~~l~~~~~  231 (300)
                      ..++.+|.
T Consensus       261 ~~l~~~y~  268 (906)
T PRK14720        261 EELIRFYK  268 (906)
T ss_pred             HHHHHHHH
Confidence            77777775

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.72  E-value=2.4e-05  Score=63.13  Aligned_cols=200  Identities=15%  Similarity=0.131  Sum_probs=111.9

Q ss_pred             cHHHHHHHHHHhhhcC--CCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043969           25 LARKVVERFIKSKLFN--FRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRL  102 (300)
Q Consensus        25 ~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (300)
                      ++.++.+.-+.+...+  -.|+...+...+.+......-..+..++..-.+.  .-...-|..- ..+...|++++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A-~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRA-LQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHH-HHHHHhcccchHHHH
Confidence            4455555555554432  1334445555555444333333333222222221  1122223333 344567777777777


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 043969          103 LDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS-VLHFTTLMDGLSRAGNLDACKYFFDEMANKGC  181 (300)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (300)
                      ++.+.+.- |-|+.........+.+.++.++|.+.++.+...  .|+ ....-.+..++.+.|++.+|..+++..... .
T Consensus       329 l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~  404 (484)
T COG4783         329 LQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-D  404 (484)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-C
Confidence            77776652 333444455556777777777777777777765  233 455556667777777777777777776655 2


Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          182 MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       182 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      +-|+..|..|.++|...|+..++..-..+...                  ..|++++|...+....+.
T Consensus       405 p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~------------------~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         405 PEDPNGWDLLAQAYAELGNRAEALLARAEGYA------------------LAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             CCCchHHHHHHHHHHHhCchHHHHHHHHHHHH------------------hCCCHHHHHHHHHHHHHh
Confidence            44667777777777777777777666555432                  135566666665555543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.71  E-value=3.9e-05  Score=56.71  Aligned_cols=189  Identities=14%  Similarity=0.113  Sum_probs=141.8

Q ss_pred             cccHHHHHHHHHHhhhc---C-CCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043969           23 VGLARKVVERFIKSKLF---N-FRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLD   97 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (300)
                      ..+.+++++++.++...   + ..++.. .|..++-+....|+.+.|...++++.++- +-+...-..-...+-..|+++
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            34678888888776432   3 455655 67778888889999999999999998773 223332222222344579999


Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMA  177 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (300)
                      +|+++++.+...+ |.|..++..-+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++.
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            9999999999886 667788877777777788888999999888887 78899999999999999999999999999998


Q ss_pred             hCCCCCccccHHHHHHHHHh---cCCHHHHHHHHHHHHHCC
Q 043969          178 NKGCMPDVVCYTVMITSYIA---AGELEKAQDLFDGMITKG  215 (300)
Q Consensus       178 ~~~~~~~~~~~~~li~~~~~---~~~~~~a~~~~~~~~~~~  215 (300)
                      -.. +.+...+..+...+.-   ..+.+.|.++|.+..+..
T Consensus       182 l~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  182 LIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            752 2334444455554433   346778899999888763

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

Probab=98.71  E-value=0.00011  Score=61.57  Aligned_cols=272  Identities=13%  Similarity=0.113  Sum_probs=172.6

Q ss_pred             HHHHHhhccccHHHHHHHHHHhhhc-CCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc
Q 043969           15 ILICTCGEVGLARKVVERFIKSKLF-NFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL   93 (300)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (300)
                      ..+....+.++.......|+..... .+.....+|...+......+-.+.+..++++.++-    ++..-+-.+..+++.
T Consensus       107 ~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~  182 (835)
T KOG2047|consen  107 DYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKS  182 (835)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhc
Confidence            3344445667777777777765432 22233337888888888888888899999888865    344467778888889


Q ss_pred             CCHHHHHHHHHHHHhC------CCCCCHhHHHHHHHHHhcCCChHH---HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC
Q 043969           94 GKLDQFHRLLDEMGRS------GFSPDFHTYNILLHVLGKGDKPLA---ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG  164 (300)
Q Consensus        94 ~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (300)
                      +++++|.+.+......      ..+.+...|..+-+..++..+.-.   ...+++.+...-..--...|++|.+-|.+.|
T Consensus       183 d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g  262 (835)
T KOG2047|consen  183 DRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSG  262 (835)
T ss_pred             cchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhh
Confidence            9999998888776432      224556667777766665443322   3334444443311111256889999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC----------------------HHHHHHHHHHHHHCC-------
Q 043969          165 NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE----------------------LEKAQDLFDGMITKG-------  215 (300)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----------------------~~~a~~~~~~~~~~~-------  215 (300)
                      .+++|.++|++....  ..+..-|+.+..+|+.-..                      ++-.+.-|+.+.+.+       
T Consensus       263 ~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsV  340 (835)
T KOG2047|consen  263 LFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSV  340 (835)
T ss_pred             hhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHH
Confidence            999999999988765  3355556666666554321                      222233333333221       


Q ss_pred             ----CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          216 ----QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN------FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       216 ----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                          -+.+...|..-+..  ..|+..+-...+.+..+. +.|.      ...|..+...|...|+++.|..+|++..+-.
T Consensus       341 lLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~  417 (835)
T KOG2047|consen  341 LLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVP  417 (835)
T ss_pred             HHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCC
Confidence                11244455554443  356778888888888764 3332      2457788888999999999999999998765


Q ss_pred             --hHHHHHHHhh
Q 043969          286 --KYIHLVSKFK  295 (300)
Q Consensus       286 --~~~~l~~~~~  295 (300)
                        ...++.+.++
T Consensus       418 y~~v~dLa~vw~  429 (835)
T KOG2047|consen  418 YKTVEDLAEVWC  429 (835)
T ss_pred             ccchHHHHHHHH
Confidence              3334444443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.71  E-value=1.2e-06  Score=60.94  Aligned_cols=108  Identities=7%  Similarity=-0.159  Sum_probs=86.5

Q ss_pred             HHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043969           31 ERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG  110 (300)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (300)
                      +++++....  .|+.  +......+...|++++|...|+......+. +...|..+..++...|++++|...|+......
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            445554443  4543  455677888899999999999998887533 78888888899999999999999999998765


Q ss_pred             CCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969          111 FSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                       +.+...+..+..++...|++++|...|+...+.
T Consensus        89 -p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 -ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             -CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             557788888888999999999999999998876

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.71  E-value=3.2e-05  Score=67.51  Aligned_cols=133  Identities=8%  Similarity=-0.028  Sum_probs=73.7

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +...+..|..+..+.|.+++|+.+++...+..+. +......+...+.+.+++++|+...++..... +-+......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHH
Confidence            3445555555666666666666666666554322 34445555555666666666666666655543 233444455555


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ++.+.|++++|..+|+++... .+-+..++..+...+-..|+.++|...|+...+.
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            556666666666666666552 2233455555555566666666666666655544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.69  E-value=4.1e-06  Score=63.31  Aligned_cols=228  Identities=14%  Similarity=0.200  Sum_probs=164.1

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHH-HHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNIL-LHVL  125 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~  125 (300)
                      -+.+.+..+.+..++.+|++++..-.++..+ +....+.+..+|....++..|-..++++...  .|...-|... ...+
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 EFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            4677777788899999999999988877533 7778888889999999999999999999776  4666666543 3456


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhh--HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLH--FTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEK  203 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  203 (300)
                      .+.+.+..|+++...|.+.   ++...  ...-.......+++..+..+.++....|   +..+.+...-...+.|++++
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            6788999999999888753   22221  1111223456788888888888776432   44445555555678999999


Q ss_pred             HHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-------------CCHH--------HHHHH
Q 043969          204 AQDLFDGMITK-GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN-------------PNFL--------VYNTL  261 (300)
Q Consensus       204 a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------------~~~~--------~~~~l  261 (300)
                      |.+-|+...+- |.. ....|+..+..| +.|+++.|++...++++.|++             ||..        .-+.+
T Consensus       163 AvqkFqaAlqvsGyq-pllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal  240 (459)
T KOG4340|consen  163 AVQKFQAALQVSGYQ-PLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSAL  240 (459)
T ss_pred             HHHHHHHHHhhcCCC-chhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHH
Confidence            99999998876 555 456788766655 668999999999999887643             2211        12333


Q ss_pred             HHH-------HHhcCCHHHHHHHHHHHHHcC
Q 043969          262 VSN-------LRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       262 i~~-------~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +.+       +.+.|+++.|.+.+.+|.-+.
T Consensus       241 ~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRa  271 (459)
T KOG4340|consen  241 VEAFNLKAAIEYQLRNYEAAQEALTDMPPRA  271 (459)
T ss_pred             HHHhhhhhhhhhhcccHHHHHHHhhcCCCcc
Confidence            333       457789999999888886544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.69  E-value=3.2e-06  Score=58.88  Aligned_cols=108  Identities=11%  Similarity=-0.008  Sum_probs=82.3

Q ss_pred             HHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 043969           66 WVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG  145 (300)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (300)
                      .++++..+.  .|+  .+......+...|++++|...|+...... +.+...|..+..++...|++++|...|+......
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            355555554  233  34456677788888888888888887765 5577788888888888888888888888888763


Q ss_pred             CCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          146 FDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       146 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                       +.+...+..+..++...|++++|...|+...+.
T Consensus        89 -p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 -ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             -CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             456677788888888888888888888888775

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

Probab=98.69  E-value=0.00013  Score=61.16  Aligned_cols=267  Identities=11%  Similarity=0.090  Sum_probs=144.3

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCc----------------------HHHHHHHH
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ----------------------YKLIEWVY   68 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------------~~~a~~~~   68 (300)
                      ..|++|.+.|.+.|.+++|.+++++....  .....-|..+..+|+.-.+                      ++....-|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            35788888888889999998888886553  2333344444444442211                      22222333


Q ss_pred             HHhhhCCC-----------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC------CHhHHHHHHHHHhcCCCh
Q 043969           69 QQMSDEGY-----------APDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSP------DFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        69 ~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~  131 (300)
                      +.+...+.           +.+...|..-...  ..|+..+...++.++.+. +.|      -...|..+.+.|-..|+.
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            33333210           1122223222221  235566666666666543 122      134567777888888888


Q ss_pred             HHHHHHHHHHHHcCCCCc---HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC----------CC-------ccccHHHH
Q 043969          132 LAALNLLNHMKEVGFDPS---VLHFTTLMDGLSRAGNLDACKYFFDEMANKGC----------MP-------DVVCYTVM  191 (300)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~-------~~~~~~~l  191 (300)
                      +.|..+|++..+..++--   ..+|.....+=.+..+++.|+++++.....--          .|       +...|...
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            888888888877544322   34555555666667778888887776643211          11       22345555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh---
Q 043969          192 ITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF-LVYNTLVSNLRN---  267 (300)
Q Consensus       192 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~---  267 (300)
                      +..--..|-++....+|+++.+..+. ++.........+-.+.-++++.+++++-+..=-.|+. ..|+..+.-+.+   
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ryg  562 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYG  562 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhc
Confidence            55555667777777888877776543 3333333333334445555566555544433112222 344444443322   


Q ss_pred             cCCHHHHHHHHHHHHH
Q 043969          268 AGKLAEAHEVIRHMVE  283 (300)
Q Consensus       268 ~g~~~~a~~~~~~~~~  283 (300)
                      .-.++.|..+|++.++
T Consensus       563 g~klEraRdLFEqaL~  578 (835)
T KOG2047|consen  563 GTKLERARDLFEQALD  578 (835)
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            2346666666666665

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.65  E-value=0.00016  Score=66.58  Aligned_cols=268  Identities=10%  Similarity=0.015  Sum_probs=162.7

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCC------CcCH--HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH----hhHH
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNF------RPFK--NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI----LTYN   84 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~------~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~   84 (300)
                      ...+...|+++++...+......-.      .+..  .....+...+...|+++.|...+++..+.-...+.    ...+
T Consensus       416 a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~  495 (903)
T PRK04841        416 AWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATS  495 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHH
Confidence            3344556788888888776533210      1111  12223344556789999999999887763211121    2345


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC---CCC--HhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCC--C-cHhh
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRSGF---SPD--FHTYNILLHVLGKGDKPLAALNLLNHMKEV----GFD--P-SVLH  152 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~  152 (300)
                      .+...+...|++++|...+++.....-   .+.  ..+...+...+...|+++.|...+++....    +..  + ....
T Consensus       496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  575 (903)
T PRK04841        496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL  575 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence            555667788999999988887753210   111  234455566778899999999988876542    211  1 1233


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhC--CCCC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHH--HH-
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANK--GCMP--DVVCYTVMITSYIAAGELEKAQDLFDGMITKG--QLPNVF--TY-  223 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~--~~-  223 (300)
                      +..+...+...|++++|...+.+....  ...+  ....+..+.......|++++|...+.......  ......  .. 
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  655 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANA  655 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHH
Confidence            445556677789999999988876542  1111  23344455667778999999999888875421  111111  10 


Q ss_pred             -HHHHHHHhccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          224 -NSMIRGFCMAGKFDEACTMMKEMESRGCNPN---FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       224 -~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                       ...+..+...|+.+.|..++...........   ...+..+..++...|+.++|...+++..+.
T Consensus       656 ~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        656 DKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1122444557889999888776554211111   111345666788999999999999998764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=0.00014  Score=59.40  Aligned_cols=80  Identities=16%  Similarity=0.172  Sum_probs=54.6

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHH-HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKN-SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNI   85 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (300)
                      |++...|..-..+|...|++.+|++--.+....  .|+=. .|+....++...|++++|+..|.+-++.... +...++-
T Consensus        33 p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d~~-n~~L~~g  109 (539)
T KOG0548|consen   33 PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKDPS-NKQLKTG  109 (539)
T ss_pred             CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcCCc-hHHHHHh
Confidence            345666777777788888888888776665554  45433 7888888888889999998888877665322 3444444


Q ss_pred             HHHH
Q 043969           86 VMCA   89 (300)
Q Consensus        86 l~~~   89 (300)
                      +..+
T Consensus       110 l~~a  113 (539)
T KOG0548|consen  110 LAQA  113 (539)
T ss_pred             HHHh
Confidence            4443

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

Probab=98.63  E-value=7.7e-06  Score=70.03  Aligned_cols=240  Identities=15%  Similarity=0.197  Sum_probs=155.9

Q ss_pred             chHHHHHHH--HHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC-C--------CC
Q 043969            9 TARTFNILI--CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDE-G--------YA   77 (300)
Q Consensus         9 ~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~--------~~   77 (300)
                      |..|-..++  +.|...|+.+.|++-+.-++      +...|..+.+.|.+..+++-|.-.+-.|... |        -.
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            455555565  34677899999988876653      3448999999999999988887666655431 1        12


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHH
Q 043969           78 PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLM  157 (300)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (300)
                      |+ .+-..+.-.....|.+++|+.++.+..+         |..|-..|...|.+++|+++-+.-....+   ..||....
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHH
Confidence            22 2222333445678999999999998765         34556677888999999988665433222   24555556


Q ss_pred             HHHHhCCCHHHHHHHHHHHH-----------hC--------CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          158 DGLSRAGNLDACKYFFDEMA-----------NK--------GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~-----------~~--------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      .-+...++.+.|++.|+...           +.        .-..|...|......+-..|+.+.|+.+|....+     
T Consensus       866 ~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----  940 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----  940 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----
Confidence            66666777777777776531           11        1123566777777778889999999999987654     


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          219 NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                          |-.+++..|-.|+.++|-++.++--      |....-.|.+.|...|++.+|..+|.+..
T Consensus       941 ----~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 ----YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             ----hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                3445556666666666666654321      34444455566666666666666665543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=0.00012  Score=57.05  Aligned_cols=167  Identities=13%  Similarity=0.147  Sum_probs=79.4

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHH-----HHHHHHhCCCHHHHHHHHHHHHhCCCCCcccc-HHHHHH
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTT-----LMDGLSRAGNLDACKYFFDEMANKGCMPDVVC-YTVMIT  193 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~  193 (300)
                      .|+--|.+.++..+|..+.+++.-.  .|-......     +..-.........|...|+..-+++..-|... -.++..
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs  367 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMAS  367 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHH
Confidence            3344466777777777776665311  111111111     11111122234555666655544433322221 233444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCCHH
Q 043969          194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYN-TLVSNLRNAGKLA  272 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~~~g~~~  272 (300)
                      ++.-..++++++..+..+..--..-|...+| +.++++..|++.+|.++|-....-.++ |..+|. .|.++|.+.+.++
T Consensus       368 ~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~  445 (557)
T KOG3785|consen  368 YFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQ  445 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCch
Confidence            4444455566655555554432222333333 556666666666666666555443333 333333 3445566666666


Q ss_pred             HHHHHHHHHHHcChHHHH
Q 043969          273 EAHEVIRHMVEKGKYIHL  290 (300)
Q Consensus       273 ~a~~~~~~~~~~~~~~~l  290 (300)
                      .|+.++-++...+.-.++
T Consensus       446 lAW~~~lk~~t~~e~fsL  463 (557)
T KOG3785|consen  446 LAWDMMLKTNTPSERFSL  463 (557)
T ss_pred             HHHHHHHhcCCchhHHHH
Confidence            666665555444433333

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

Probab=98.61  E-value=5.1e-06  Score=57.35  Aligned_cols=96  Identities=14%  Similarity=0.023  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      ....+...+...|++++|...++.+...+. .+...+..+...+...|++++|...++...+.+ +.+...+..+...+.
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~   96 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYDP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            444555556666666666666666655432 255556666666666666666666666665543 344555555666666


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|++++|.+.++...+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        97 ALGEPESALKALDLAIEI  114 (135)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666666666554

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

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

Probab=98.60  E-value=6.8e-06  Score=57.44  Aligned_cols=126  Identities=14%  Similarity=0.241  Sum_probs=79.6

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc----ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHH
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV----VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV--FTYN  224 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~  224 (300)
                      ..|..++..+ ..++...+...++.+.+..  |+.    ...-.+...+...|++++|...|+...+....|+.  ....
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            3455555554 3677777777777776652  222    22233446667778888888888887776533322  2445


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          225 SMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      .+...+...|++++|+..++.....  ......+......|.+.|++++|...|++.
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            5677777888888888887664332  223445566667788888888888887764

>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=98.60  E-value=5.9e-06  Score=66.76  Aligned_cols=122  Identities=16%  Similarity=0.215  Sum_probs=89.4

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      ..++..+...++++.|..+++++.+..  |+  ....++..+...++..+|.+++++..+... -+..........|.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p-~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENP-QDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhc
Confidence            455566666778888888888887763  33  455577777777788888888888776532 3566666677778888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          234 GKFDEACTMMKEMESRGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      ++++.|+.+.+++.+.  .|+ ..+|..|..+|...|+++.|+..++.+.
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            8888888888888875  444 4578888888888888888888877665

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

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.59  E-value=0.0001  Score=62.73  Aligned_cols=130  Identities=15%  Similarity=0.083  Sum_probs=102.9

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM  232 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  232 (300)
                      |......+.+.+..++|...+.+.... .+.....|......+...|.+++|.+.|......+.. ++.....+..++.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~-hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD-HVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHH
Confidence            345566777888888888887777655 2345556677777788899999999999988775332 46678889999999


Q ss_pred             cCCHHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          233 AGKFDEACT--MMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       233 ~~~~~~a~~--~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .|+..-|..  ++.++.+.+ +.+...|..+...+.+.|+.++|.+-|+...+-.
T Consensus       731 ~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            998888877  999999874 4478899999999999999999999999887643

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

Probab=98.58  E-value=0.00025  Score=58.76  Aligned_cols=120  Identities=18%  Similarity=0.134  Sum_probs=65.9

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK   95 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (300)
                      =++-+...+++++|.....+....+ +-+...+..=+-++.+.+++++|+.+.+.-...  ..+...+--=.-+..+.+.
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHccc
Confidence            3566777889999999998887764 334445666666778888888888655432210  0011110011122335566


Q ss_pred             HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHH
Q 043969           96 LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMK  142 (300)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (300)
                      .++|+..++-..+    .+..+...-...+.+.|++++|+++|+.+.
T Consensus        95 ~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~  137 (652)
T KOG2376|consen   95 LDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLA  137 (652)
T ss_pred             HHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            6666666552211    122233344445556666666666666653

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

Probab=98.58  E-value=7.7e-06  Score=56.45  Aligned_cols=98  Identities=9%  Similarity=0.030  Sum_probs=57.5

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ......+...+...|++++|.+.++.+...+ +.+...+..+...+...|++++|...++...+.. +.+...+..+...
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            3344445555666666666666666665543 3355556666666666666666666666665543 3344555555556


Q ss_pred             HHhCCCHHHHHHHHHHHHhC
Q 043969          160 LSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~  179 (300)
                      +...|++++|...|+...+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            66666666666666665554

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

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.56  E-value=1.5e-06  Score=70.41  Aligned_cols=124  Identities=14%  Similarity=0.083  Sum_probs=93.9

Q ss_pred             CCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhc--CCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhh
Q 043969            5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLF--NFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILT   82 (300)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (300)
                      +.+.++.....+++.+....+.+++.+++.+.+..  ....-..|..++++.|.+.|..+.++.+++.=.+.|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            45667777778888888888888888887776654  1112223567888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcC
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG  128 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (300)
                      +|.+|..+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887766666667776666665554

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 [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.50  E-value=6.7e-06  Score=66.79  Aligned_cols=124  Identities=11%  Similarity=0.117  Sum_probs=93.3

Q ss_pred             CCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc--CCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcccc
Q 043969          110 GFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV--GFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVC  187 (300)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  187 (300)
                      +.+.+......+++.+....+.+.+..++.+....  ....-..|..++++.|.+.|..+.+..++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44566777778888888888888888888877665  2222234456888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      +|.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887776666667766666665554

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 [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.50  E-value=0.00039  Score=57.14  Aligned_cols=99  Identities=11%  Similarity=0.138  Sum_probs=76.8

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          185 VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP-NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       185 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      ..+|...++...+..-++.|..+|.+..+.+..+ ++..+++++.-+|. +|..-|.++|+--.+. +.-+..--...+.
T Consensus       366 tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~Yld  443 (656)
T KOG1914|consen  366 TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLD  443 (656)
T ss_pred             ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHH
Confidence            4567888888888888999999999999987776 77778888887765 7889999999876654 2223344456677


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 043969          264 NLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      -+...++-..+..+|++.+.++
T Consensus       444 fL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  444 FLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHhCcchhHHHHHHHHHhcc
Confidence            7788888888888888888774

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.49  E-value=0.00037  Score=56.54  Aligned_cols=232  Identities=15%  Similarity=0.073  Sum_probs=155.4

Q ss_pred             cHHHHHHHHHHhh---hcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCC--CCCCHhhHHHHHHHHHhcCCHHHH
Q 043969           25 LARKVVERFIKSK---LFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEG--YAPDILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        25 ~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a   99 (300)
                      +.....+.|+++.   ..+-.|+..    ++..=.-..+...+...-+++...+  -.|+.......+.+......-..+
T Consensus       218 dp~gM~~ff~rl~~~~~~~~~~p~y----l~THPlp~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~  293 (484)
T COG4783         218 DPQGMPEFFERLADQLRYGGQPPEY----LLTHPLPEERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQA  293 (484)
T ss_pred             CchhHHHHHHHHHHHHhcCCCCChH----HhcCCCchhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccch
Confidence            4555566676665   233344432    1222223345556666666665432  345566666666655444433333


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          100 HRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ...+....+.  .-...-|..-+. +...|++++|+..++.+... .+-|+.......+.+.+.++.++|.+.++.+...
T Consensus       294 ~~~~~~~~~~--~~~aa~YG~A~~-~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l  369 (484)
T COG4783         294 ADLLAKRSKR--GGLAAQYGRALQ-TYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL  369 (484)
T ss_pred             HHHHHHHhCc--cchHHHHHHHHH-HHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Confidence            3333332221  123344555554 44678999999999998876 4556666677788999999999999999999887


Q ss_pred             CCCCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043969          180 GCMPD-VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVY  258 (300)
Q Consensus       180 ~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  258 (300)
                        .|+ ....-.+..++.+.|++++|+.+++...... +-|+..|..|.++|...|+..++..-..+..           
T Consensus       370 --~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~-----------  435 (484)
T COG4783         370 --DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY-----------  435 (484)
T ss_pred             --CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH-----------
Confidence              455 5566778899999999999999999988774 4488999999999999999999888776654           


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          259 NTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       259 ~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                             ...|+++.|...+....+..
T Consensus       436 -------~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         436 -------ALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             -------HhCCCHHHHHHHHHHHHHhc
Confidence                   34566666666666666544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.49  E-value=3.9e-07  Score=46.39  Aligned_cols=33  Identities=33%  Similarity=0.658  Sum_probs=14.9

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPN  219 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  219 (300)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            344444444444444444444444444444443

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.

>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=98.47  E-value=1.2e-05  Score=65.05  Aligned_cols=124  Identities=14%  Similarity=0.130  Sum_probs=93.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      ....++..+...++++.|..+++++.+..  |+  ....++..+...++..+|.+++++..+. .+.+..........+.
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--VAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHH
Confidence            34455666667788888888888887763  44  4455777777778888888888888765 3446666666777788


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCc-cccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMPD-VVCYTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      +.++.+.|..+.+++.+.  .|+ ..+|..|..+|.+.|+++.|+..++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            888888888888888876  344 4588888888888888888888888765

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

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.47  E-value=3.7e-07  Score=46.49  Aligned_cols=34  Identities=47%  Similarity=0.917  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF  255 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (300)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6899999999999999999999999999998873

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.

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

Probab=98.45  E-value=0.00021  Score=59.16  Aligned_cols=220  Identities=13%  Similarity=0.037  Sum_probs=137.2

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCC
Q 043969           51 ILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDK  130 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (300)
                      =++.+...+++++|.+...+++..++. +...+..=+-+..+.+.+++|+.+.+.-...  ..+..-+..-.-+..+.+.
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHccc
Confidence            455677889999999999999987633 6667777777889999999999665543211  1111111222334567899


Q ss_pred             hHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHH-hcCCHHHHHHHHH
Q 043969          131 PLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYI-AAGELEKAQDLFD  209 (300)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~~~a~~~~~  209 (300)
                      .++|+..++-..    +.+..+...-...+.+.|++++|.++|+.+.+.+.    ..+..-+.+-+ ..+-.-.+. +.+
T Consensus        95 ~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~----dd~d~~~r~nl~a~~a~l~~~-~~q  165 (652)
T KOG2376|consen   95 LDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS----DDQDEERRANLLAVAAALQVQ-LLQ  165 (652)
T ss_pred             HHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC----chHHHHHHHHHHHHHHhhhHH-HHH
Confidence            999999888322    12334555667788999999999999999987743    22333222211 111111111 222


Q ss_pred             HHHHCCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-------CCCCCH-------HHHHHHHHHHHhcCCHHH
Q 043969          210 GMITKGQLP--NVFTYNSMIRGFCMAGKFDEACTMMKEMESR-------GCNPNF-------LVYNTLVSNLRNAGKLAE  273 (300)
Q Consensus       210 ~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-------~~~~~li~~~~~~g~~~~  273 (300)
                         .....|  +...+-.....+...|++.+|+++++...+.       +-.-+.       ..-..+.-++...|+.++
T Consensus       166 ---~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  166 ---SVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             ---hccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence               222233  2223333455667889999999999988321       111111       112234445678899999


Q ss_pred             HHHHHHHHHHcC
Q 043969          274 AHEVIRHMVEKG  285 (300)
Q Consensus       274 a~~~~~~~~~~~  285 (300)
                      |.+++...++.+
T Consensus       243 a~~iy~~~i~~~  254 (652)
T KOG2376|consen  243 ASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHhc
Confidence            999999999887

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.43  E-value=0.00024  Score=62.66  Aligned_cols=210  Identities=14%  Similarity=0.130  Sum_probs=129.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .|..+..+-.+.|...+|.+-|-+.      .|+..|..++....+.|.+++..+++.-.++..-.|..  =+.|+-+|+
T Consensus      1106 vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyA 1177 (1666)
T KOG0985|consen 1106 VWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYA 1177 (1666)
T ss_pred             HHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHH
Confidence            5677777777777777776555332      26778888899999999999988888777766544443  457788888


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhh--------------------------HHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLH--------------------------FTTLMDGLSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~--------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      +.++..+..+++.       -|+...                          |..|...+...|++..|.+.-+..    
T Consensus      1178 kt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA---- 1246 (1666)
T KOG0985|consen 1178 KTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA---- 1246 (1666)
T ss_pred             HhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc----
Confidence            8887766554431       233333                          344444444555555444333222    


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNT  260 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (300)
                        -+..||-.+-.+|...+.+.-|.     |.-.++.....-...++.-|-..|.+++.+.+++...... +...-.|+.
T Consensus      1247 --ns~ktWK~VcfaCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmfTE 1318 (1666)
T KOG0985|consen 1247 --NSTKTWKEVCFACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMFTE 1318 (1666)
T ss_pred             --cchhHHHHHHHHHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHHHH
Confidence              25667777777777666655442     3333344556677889999999999999999887655321 122334555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          261 LVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       261 li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      |.-.|.+ -++++.++.++-.-.+
T Consensus      1319 LaiLYsk-ykp~km~EHl~LFwsR 1341 (1666)
T KOG0985|consen 1319 LAILYSK-YKPEKMMEHLKLFWSR 1341 (1666)
T ss_pred             HHHHHHh-cCHHHHHHHHHHHHHh
Confidence            5555544 3455555555444433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.43  E-value=5.7e-07  Score=45.45  Aligned_cols=29  Identities=34%  Similarity=0.637  Sum_probs=11.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 043969          223 YNSMIRGFCMAGKFDEACTMMKEMESRGC  251 (300)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (300)
                      |+.++.+|++.|+++.|.++|++|.+.|+
T Consensus         4 y~~ll~a~~~~g~~~~a~~~~~~M~~~gv   32 (34)
T PF13812_consen    4 YNALLRACAKAGDPDAALQLFDEMKEQGV   32 (34)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            33444444444444444444444443333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.43  E-value=5.6e-07  Score=45.48  Aligned_cols=33  Identities=30%  Similarity=0.538  Sum_probs=28.1

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888876

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.41  E-value=0.00096  Score=58.11  Aligned_cols=223  Identities=13%  Similarity=0.114  Sum_probs=147.0

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHH--HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKNSYNAILHAL--LGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQ   98 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (300)
                      ...+++++|+....+..+.  .|+.. |..++.++  .+.|+.++|..+++.....+.. |..|...+-..|...++.++
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            4567899999988887665  46553 34444443  5788999999888887766655 88899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC----------CHHH
Q 043969           99 FHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG----------NLDA  168 (300)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~  168 (300)
                      |..+|+.....  -|+......+..+|.+.+.+.+-.+.--++-+. ++.....+=++++.+...-          -..-
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            99999998876  477777788888898888876644444344332 3444444445555443321          1234


Q ss_pred             HHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          169 CKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFD-GMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       169 a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      |.+.++.+.+.+.+. +..-...-...+-..|++++|++++. ...+.-...+...-+.-+..+...+++.+..++-.++
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            555666665543111 11111122233456788999999984 4444333334455556677778888898888888888


Q ss_pred             HHCC
Q 043969          247 ESRG  250 (300)
Q Consensus       247 ~~~~  250 (300)
                      ...|
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            8764

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.41  E-value=0.0011  Score=57.81  Aligned_cols=224  Identities=19%  Similarity=0.188  Sum_probs=152.7

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH--HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChH
Q 043969           55 LLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA--KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPL  132 (300)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (300)
                      ....+++..|.+-..++.+..  |+. .|..++.+  ..+.|+.++|..+++.....+. .|..|...+-.+|...++.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~-~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKG-TDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCC-CchHHHHHHHHHHHHHhhhh
Confidence            346789999999999988773  443 23344443  4688999999999998877663 48889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC----------HH
Q 043969          133 AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE----------LE  202 (300)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----------~~  202 (300)
                      +|..+|++....  -|+......+..+|.+.+++.+-.+.--++-+. .+-+...+=.+++.+.+.-.          ..
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~  171 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLA  171 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHH
Confidence            999999999886  456777777778888888776555444444332 22234444444444443221          23


Q ss_pred             HHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          203 KAQDLFDGMITKG-QLPNVFTYNSMIRGFCMAGKFDEACTMMK-EMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRH  280 (300)
Q Consensus       203 ~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  280 (300)
                      -|.+.++.+.+.+ ..-+..-.......+...|++++|+.++. ...+.-...+...-+.-+..+...+++.+..++-.+
T Consensus       172 LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~  251 (932)
T KOG2053|consen  172 LAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSR  251 (932)
T ss_pred             HHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHH
Confidence            4666677776654 22233333334445567889999999984 444432333444445566778889999999999999


Q ss_pred             HHHcC
Q 043969          281 MVEKG  285 (300)
Q Consensus       281 ~~~~~  285 (300)
                      +.+.|
T Consensus       252 Ll~k~  256 (932)
T KOG2053|consen  252 LLEKG  256 (932)
T ss_pred             HHHhC
Confidence            99887

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

Probab=98.40  E-value=5.9e-05  Score=52.70  Aligned_cols=124  Identities=15%  Similarity=0.199  Sum_probs=64.8

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc---HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc--ccHHHHH
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEVGFDPS---VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV--VCYTVMI  192 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li  192 (300)
                      |..++..+. .++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+.+......|+.  .....+.
T Consensus        15 y~~~~~~~~-~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQALQ-AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHHH-CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            334444432 555666666666665542 222   122223345556666666666666666655322211  1233345


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          193 TSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      ..+...|++++|+..++......  .....+......+.+.|++++|...|+.
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55666666666666665533222  2334455566666666777766666654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.39  E-value=9.2e-06  Score=52.12  Aligned_cols=81  Identities=23%  Similarity=0.366  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCC-CCCHhhHHHHHHHHHhcC--------CHHHHHHHHHHHHhCCCCCCHhH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGY-APDILTYNIVMCAKYRLG--------KLDQFHRLLDEMGRSGFSPDFHT  117 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  117 (300)
                      +-...|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ++-+.+.+++.|...+++|+..+
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            334556666666888888888888888888 788888888887766543        23456667777777777777777


Q ss_pred             HHHHHHHHhc
Q 043969          118 YNILLHVLGK  127 (300)
Q Consensus       118 ~~~l~~~~~~  127 (300)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            7777766543

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 [, , ].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.32  E-value=0.0013  Score=56.48  Aligned_cols=207  Identities=11%  Similarity=0.063  Sum_probs=128.3

Q ss_pred             CCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHhHH
Q 043969           40 NFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSP-DFHTY  118 (300)
Q Consensus        40 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~  118 (300)
                      .+.-+...|..+--++...|+++.+.+.|++...--+. ....|..+...+...|.-..|..+++......-.| ++..+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34556667888888888888888888888887654333 56677778778888888888888887765442123 33333


Q ss_pred             HHHHHHH-hcCCChHHHHHHHHHHHHc--CC--CCcHhhHHHHHHHHHhC----C-------CHHHHHHHHHHHHhCCCC
Q 043969          119 NILLHVL-GKGDKPLAALNLLNHMKEV--GF--DPSVLHFTTLMDGLSRA----G-------NLDACKYFFDEMANKGCM  182 (300)
Q Consensus       119 ~~l~~~~-~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~----~-------~~~~a~~~~~~~~~~~~~  182 (300)
                      -..-..| .+.+..++++.+-.+....  +.  ......|..+.-+|...    .       ...++.+.+++..+.+. 
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~-  475 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP-  475 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC-
Confidence            3333333 3446666666666555541  10  11223333333333221    1       23456666666655432 


Q ss_pred             CccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          183 PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       183 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .|....-.+.--|+..++.+.|.+..++..+.+..-+...|..+.-.+...+++.+|+.+.+...+
T Consensus       476 ~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  476 TDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALE  541 (799)
T ss_pred             CCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            122233333334566778888888888888875566788888888888888888888888877664

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.31  E-value=0.00021  Score=55.70  Aligned_cols=191  Identities=11%  Similarity=0.077  Sum_probs=121.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcC-------CChHHHHHHHHHHHHcCCCCcH-hhHHHHH
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG-------DKPLAALNLLNHMKEVGFDPSV-LHFTTLM  157 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~  157 (300)
                      ++--|.+.+++.+|..+.+++.    |.++.-|..-.-.+...       ....-|.+.|+-.-+.+..-|. ....++.
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmA  366 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMA  366 (557)
T ss_pred             heeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHH
Confidence            3344678899999998887764    22332222111112222       2344466666655554443332 3345566


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHhccCCH
Q 043969          158 DGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTY-NSMIRGFCMAGKF  236 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~  236 (300)
                      +.+.-..++++++..+..+..--. -|...--.+.++.+..|++.+|+++|-.+....++ |..+| ..+.++|.+.+++
T Consensus       367 s~fFL~~qFddVl~YlnSi~sYF~-NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP  444 (557)
T KOG3785|consen  367 SYFFLSFQFDDVLTYLNSIESYFT-NDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKP  444 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhc-CcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCc
Confidence            666667788888888888776532 23333345788899999999999999888766555 44455 5566888999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          237 DEACTMMKEMESRGCNPNFLVY-NTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +.|+.++-.+..   +.+..+. ..+.+.|.+++.+--|-+.|..+...+
T Consensus       445 ~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  445 QLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             hHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            999887654432   2233333 344456888888888888888776654

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

Probab=98.31  E-value=7.6e-05  Score=58.48  Aligned_cols=137  Identities=13%  Similarity=0.214  Sum_probs=84.0

Q ss_pred             hHHHHHHHHHhC-CCHHHHHHHHHHHHhC----CCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----CC
Q 043969          152 HFTTLMDGLSRA-GNLDACKYFFDEMANK----GCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITKGQL-----PN  219 (300)
Q Consensus       152 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----p~  219 (300)
                      .+..+...|... |+++.|.+.|++..+.    + .+.  ...+..+...+.+.|++++|.++|++.......     ++
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            344555566666 7888888888776432    2 111  345567777888889999999999887764221     22


Q ss_pred             HH-HHHHHHHHHhccCCHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHHh--cCCHHHHHHHHHHHHHcChHHH
Q 043969          220 VF-TYNSMIRGFCMAGKFDEACTMMKEMESR--GCNPN--FLVYNTLVSNLRN--AGKLAEAHEVIRHMVEKGKYIH  289 (300)
Q Consensus       220 ~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~li~~~~~--~g~~~~a~~~~~~~~~~~~~~~  289 (300)
                      .. .|-..+-++...||.-.|.+.+++....  ++..+  ......|+.++-.  ...++.+..-|+.+.+.+.|.+
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w~~  271 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNWKT  271 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHHHH
Confidence            22 2344455667778999999999888754  33333  3456677777743  3567888888888877776654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.29  E-value=2.7e-05  Score=50.06  Aligned_cols=72  Identities=21%  Similarity=0.366  Sum_probs=38.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccC--------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          195 YIAAGELEKAQDLFDGMITKGQ-LPNVFTYNSMIRGFCMAG--------KFDEACTMMKEMESRGCNPNFLVYNTLVSNL  265 (300)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  265 (300)
                      +...+++...-.+|+.+...|+ .|+..+|+.++.+.++..        +.-+.+.++++|...+++|+..+|+.++..+
T Consensus        35 ~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~L  114 (120)
T PF08579_consen   35 CFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSL  114 (120)
T ss_pred             HHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            3334555555555555555555 455555555555544322        1233455566666656666666666666554


Q ss_pred             H
Q 043969          266 R  266 (300)
Q Consensus       266 ~  266 (300)
                      .
T Consensus       115 l  115 (120)
T PF08579_consen  115 L  115 (120)
T ss_pred             H
Confidence            4

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 [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.28  E-value=5.8e-05  Score=58.95  Aligned_cols=129  Identities=11%  Similarity=0.141  Sum_probs=68.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH-HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV-LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGL  160 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (300)
                      +|..++....+.+..+.|..+|.+..+.+ ..+..+|...... +...++.+.|.++|+...+. ++.+...|...+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555666666666666666666665432 2233334333333 22244555566666666554 444555566666666


Q ss_pred             HhCCCHHHHHHHHHHHHhCCCCCcc---ccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          161 SRAGNLDACKYFFDEMANKGCMPDV---VCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      .+.++.+.|+.+|+..... +.++.   ..|...+..-.+.|+.+.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666544 22221   3566666666666666666666666555

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.

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

Probab=98.27  E-value=3e-06  Score=53.05  Aligned_cols=81  Identities=20%  Similarity=0.288  Sum_probs=51.3

Q ss_pred             cCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 043969          198 AGELEKAQDLFDGMITKGQ-LPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      .|+++.|+.+++++.+... .|+...+..+..+|.+.|++++|..+++. .+.+. .+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4677788888887776533 12344555577788888888888888877 32211 123444455677788888888888


Q ss_pred             HHHH
Q 043969          277 VIRH  280 (300)
Q Consensus       277 ~~~~  280 (300)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7765

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.27  E-value=0.00016  Score=61.70  Aligned_cols=137  Identities=14%  Similarity=0.164  Sum_probs=88.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      .+.+......|.+|+.+++.+...+  .-..-|..+...|...|+++.|.++|-+.-         .++-.|.+|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhcccc
Confidence            3455667778888888888887764  334457777888888888888888876532         34566778888888


Q ss_pred             HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 043969          166 LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMK  244 (300)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (300)
                      |+.|.++-.+...  .......|..-..-.-..|++.+|.++|-.+..    |+     ..|..|-+.|..+..+++..
T Consensus       807 w~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  807 WEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             HHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHH
Confidence            8888887766543  233455565555556667777777766644321    22     12444555555555444443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.26  E-value=0.00077  Score=55.32  Aligned_cols=221  Identities=13%  Similarity=0.060  Sum_probs=136.2

Q ss_pred             HHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH-----
Q 043969           14 NILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC-----   88 (300)
Q Consensus        14 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-----   88 (300)
                      ..+.+..-+..++..+++.+.......  -+..-++....++...|.+.+.........+.|.. ...-|+.+..     
T Consensus       228 k~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~  304 (539)
T KOG0548|consen  228 KELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHh
Confidence            345556666677778888777766654  44445666777788888888877777777666533 2333333333     


Q ss_pred             --HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           89 --AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        89 --~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                        ++.+.++++.+...+.+....--.|+         ...+....+++.+..+...-.+... ..-...-.+.+.+.|++
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~---------~ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy  374 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPD---------LLSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDY  374 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHH---------HHHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCH
Confidence              44455667777777776543321211         1122333444444444443332221 11122225567778888


Q ss_pred             HHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          167 DACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      ..|...|.++++.. +-|...|.....+|.+.|.+..|+.-.+...+.. ++....|..=..++....++++|.+.|++.
T Consensus       375 ~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  375 PEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             HHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888887775 4467778888888888888888887777776652 234555655566666667788888888877


Q ss_pred             HHC
Q 043969          247 ESR  249 (300)
Q Consensus       247 ~~~  249 (300)
                      .+.
T Consensus       453 le~  455 (539)
T KOG0548|consen  453 LEL  455 (539)
T ss_pred             Hhc
Confidence            765

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

Probab=98.26  E-value=4e-05  Score=48.77  Aligned_cols=93  Identities=19%  Similarity=0.259  Sum_probs=49.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNA  268 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  268 (300)
                      ..+...+...|++++|...+++..+... .+...+..+...+...+++++|.+.++...+.. +.+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            3444455555666666666665554421 133445555555556666666666666555532 22234555555556666


Q ss_pred             CCHHHHHHHHHHHHH
Q 043969          269 GKLAEAHEVIRHMVE  283 (300)
Q Consensus       269 g~~~~a~~~~~~~~~  283 (300)
                      |+.+.|...+++..+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            666666666655543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.23  E-value=7.1e-05  Score=50.23  Aligned_cols=94  Identities=15%  Similarity=0.094  Sum_probs=43.3

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc----cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHH
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPD----VVCYTVMITSYIAAGELEKAQDLFDGMITKGQL--PNVFTYNSMI  227 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~  227 (300)
                      ..+...+.+.|++++|...|..+....  |+    ...+..+..++.+.|++++|...|+.+......  .....+..+.
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            334444455555555555555554331  11    123334445555555555555555555443111  1123344444


Q ss_pred             HHHhccCCHHHHHHHHHHHHHC
Q 043969          228 RGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .++.+.|++++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            4555555555555555555543

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.22  E-value=0.00011  Score=49.36  Aligned_cols=97  Identities=12%  Similarity=-0.067  Sum_probs=44.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCC--CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHhHHHHHHH
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYA--PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF--SPDFHTYNILLH  123 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~  123 (300)
                      +..+...+.+.|++++|.+.|+.+.+....  .....+..+..++.+.|++++|...++.+....-  +.....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344444455555555555555555443211  0122333444555555555555555555543310  011233444444


Q ss_pred             HHhcCCChHHHHHHHHHHHHc
Q 043969          124 VLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      ++.+.|++++|.+.++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555544

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.21  E-value=0.0012  Score=50.30  Aligned_cols=178  Identities=12%  Similarity=0.048  Sum_probs=98.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHH---HHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTY---NILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR  162 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (300)
                      ....+.+.|++++|.+.|+.+...- +-+....   -.+..++.+.+++++|...+++..+........-+...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3344455667777777776665542 1122221   23445566667777777777766665222112222222222221


Q ss_pred             -----------------CCC---HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043969          163 -----------------AGN---LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFT  222 (300)
Q Consensus       163 -----------------~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  222 (300)
                                       ..|   ..+|...|+.+++.  -|++             .-.++|...+..+.+.    =...
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~----la~~  177 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR----LAKY  177 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH----HHHH
Confidence                             011   23444555555554  3333             2234444444443332    0111


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          223 YNSMIRGFCMAGKFDEACTMMKEMESR--GCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      -..+..-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|.++.+.+..
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            124566788889999999989888874  3344556777888899999999999887776643

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.19  E-value=0.00059  Score=47.30  Aligned_cols=95  Identities=6%  Similarity=-0.075  Sum_probs=62.6

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC  231 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (300)
                      ..-.+...+...|++++|..+|+.+.... +-+..-|-.|..++-..|++++|+..|.......+ -|+..+-.+..++.
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            34445555666777777777777766542 22444556666666777777777777777766654 25666666777777


Q ss_pred             ccCCHHHHHHHHHHHHH
Q 043969          232 MAGKFDEACTMMKEMES  248 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~  248 (300)
                      ..|+.+.|.+.|+..+.
T Consensus       115 ~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        115 ACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            77777777777776665

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

Probab=98.17  E-value=5.8e-05  Score=48.03  Aligned_cols=88  Identities=16%  Similarity=0.083  Sum_probs=35.2

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ...+...|++++|...+++..+.... +...+..+...+...+++++|.+.++...... +.+..++..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhH
Confidence            33334444444444444444433211 22333334444444444444444444443332 22223333344444444444


Q ss_pred             HHHHHHHHHH
Q 043969          132 LAALNLLNHM  141 (300)
Q Consensus       132 ~~a~~~~~~~  141 (300)
                      +.|...+...
T Consensus        85 ~~a~~~~~~~   94 (100)
T cd00189          85 EEALEAYEKA   94 (100)
T ss_pred             HHHHHHHHHH
Confidence            4444444433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.17  E-value=3.7e-06  Score=41.32  Aligned_cols=25  Identities=36%  Similarity=0.731  Sum_probs=9.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      |+.++++|++.|++++|.++|++|.
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~   27 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMR   27 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHh
Confidence            3333333333333333333333333

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.16  E-value=0.00036  Score=59.67  Aligned_cols=170  Identities=15%  Similarity=0.188  Sum_probs=113.2

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC
Q 043969           50 AILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD  129 (300)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (300)
                      -.+.+....++|.+|+.+++.+..+..  -..-|..+...|+..|+++.|.++|-+.-         .++-.|..|.+.|
T Consensus       737 kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~  805 (1636)
T KOG3616|consen  737 KAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAG  805 (1636)
T ss_pred             HHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccc
Confidence            345566677888899999888877642  34457778889999999999999886532         3456788899999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          130 KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                      +|+.|.++-.+..  |.......|.+-..-.-+.|++.+|+++|-.+.    .|+     ..|..|-+.|..+..+.+..
T Consensus       806 kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  806 KWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             cHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHH
Confidence            9999988876653  344556667666667777888888877764433    233     34566777777777776665


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 043969          210 GMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMK  244 (300)
Q Consensus       210 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (300)
                      +-.-..   -..|--.+..-+-..|+...|..-|-
T Consensus       875 k~h~d~---l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  875 KHHGDH---LHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             HhChhh---hhHHHHHHHHHHHhccChhHHHHHHH
Confidence            432211   12344445555555666666665543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.15  E-value=0.0017  Score=49.52  Aligned_cols=180  Identities=11%  Similarity=0.006  Sum_probs=106.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTY---NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      +-.....+...|++++|.+.|+++...-+.+ ....   -.+..++.+.+++++|...+++..+.--.....-+...+.+
T Consensus        35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g  113 (243)
T PRK10866         35 IYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRG  113 (243)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHH
Confidence            3334555677899999999999999875432 3332   34567889999999999999999876321112233333333


Q ss_pred             Hhc--C---------------CCh---HHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc
Q 043969          125 LGK--G---------------DKP---LAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD  184 (300)
Q Consensus       125 ~~~--~---------------~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  184 (300)
                      .+.  .               .+.   .+|+..|+.+.+.               |-...-..+|...+..+...    =
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---------------yP~S~ya~~A~~rl~~l~~~----l  174 (243)
T PRK10866        114 LTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---------------YPNSQYTTDATKRLVFLKDR----L  174 (243)
T ss_pred             HhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---------------CcCChhHHHHHHHHHHHHHH----H
Confidence            221  1               122   2345555555554               22222234444433333321    0


Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          185 VVCYTVMITSYIAAGELEKAQDLFDGMITK--GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       185 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      ...--.+..-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|.++...+.
T Consensus       175 a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        175 AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            011124556677777777777777777765  333345566677778888888888777766554

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.14  E-value=4.2e-06  Score=41.14  Aligned_cols=29  Identities=52%  Similarity=1.030  Sum_probs=19.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHCC
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMESRG  250 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (300)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666654

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.13  E-value=0.00033  Score=50.55  Aligned_cols=85  Identities=13%  Similarity=0.092  Sum_probs=51.6

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIR  228 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  228 (300)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+..+.... +...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            3455566666677777777777777665422221  245666666777777777777777776664221 4455555666


Q ss_pred             HHhccCCH
Q 043969          229 GFCMAGKF  236 (300)
Q Consensus       229 ~~~~~~~~  236 (300)
                      ++...|+.
T Consensus       115 ~~~~~g~~  122 (172)
T PRK02603        115 IYHKRGEK  122 (172)
T ss_pred             HHHHcCCh
Confidence            66665553

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.11  E-value=0.00016  Score=56.48  Aligned_cols=129  Identities=12%  Similarity=0.127  Sum_probs=71.9

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH-HHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHH
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG-LSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY  195 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (300)
                      +|..+++...+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+. +..+...|..-+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            56666666666666666667776666432 2233344444433 22345555567777666554 334555566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          196 IAAGELEKAQDLFDGMITKGQLPNV----FTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...|+.+.|..+|++.... + |..    ..|...+.-=.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l-~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-L-PKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-S-SCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-c-CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666554 2 222    36666666666666666666666666653

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=98.08  E-value=0.00059  Score=47.32  Aligned_cols=96  Identities=5%  Similarity=-0.087  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      ....+...+...|++++|..+|+.+....+. +..-|-.|..++-..|++++|+..|....... +.|+..+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            3344455555667777777777666655422 45555556666666677777777776666655 345666666666666


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|+.+.|.+-|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777776666665543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.07  E-value=0.00019  Score=51.57  Aligned_cols=79  Identities=8%  Similarity=-0.113  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAP--DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      .|..+...+...|++++|+..|++.......+  ...++..+...+...|++++|...++...... +....++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            55666666667777777777777776543222  12356666667777777777777777666542 2233444444444


Q ss_pred             Hh
Q 043969          125 LG  126 (300)
Q Consensus       125 ~~  126 (300)
                      +.
T Consensus       116 ~~  117 (168)
T CHL00033        116 CH  117 (168)
T ss_pred             HH
Confidence            44

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.06  E-value=0.00058  Score=49.26  Aligned_cols=87  Identities=9%  Similarity=-0.055  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD--ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      .+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            567777778888888888888888876543332  3567777788888888888888888877653 3345556666666


Q ss_pred             HhcCCChHHH
Q 043969          125 LGKGDKPLAA  134 (300)
Q Consensus       125 ~~~~~~~~~a  134 (300)
                      +...|+...+
T Consensus       116 ~~~~g~~~~a  125 (172)
T PRK02603        116 YHKRGEKAEE  125 (172)
T ss_pred             HHHcCChHhH
Confidence            7666664433

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.06  E-value=0.0031  Score=49.23  Aligned_cols=232  Identities=16%  Similarity=0.081  Sum_probs=162.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH---HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHH-H
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV---MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTY-N  119 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~  119 (300)
                      ++.-..-+...+...|++..|+.-|...++-    |+..|.++   ...|...|+...|+.=+....+.  +||-..- .
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARi  110 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARI  110 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHH
Confidence            3444556778888889999999999888865    44445444   35677788888888888888776  5664322 2


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCc------------HhhH--HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVGFDPS------------VLHF--TTLMDGLSRAGNLDACKYFFDEMANKGCMPDV  185 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------------~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  185 (300)
                      .-...+.+.|.++.|..-|+.+.+......            ...+  ...+..+...|+...|+.....+.+.. +.|.
T Consensus       111 QRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda  189 (504)
T KOG0624|consen  111 QRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDA  189 (504)
T ss_pred             HhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchh
Confidence            233457889999999999999887632111            1111  223445667899999999999998863 4578


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHH----H
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNT----L  261 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l  261 (300)
                      ..|..-..+|...|++..|+.=++...+... -+..++-.+-..+...|+.+.++..+++..+.  .|+......    +
T Consensus       190 ~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKkl  266 (504)
T KOG0624|consen  190 SLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKL  266 (504)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHH
Confidence            8888889999999999999998887766533 36777777888888999999999999998875  566543211    1


Q ss_pred             ---H------HHHHhcCCHHHHHHHHHHHHHcC
Q 043969          262 ---V------SNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       262 ---i------~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                         .      ....+.++|.++++-.++..+..
T Consensus       267 kKv~K~les~e~~ie~~~~t~cle~ge~vlk~e  299 (504)
T KOG0624|consen  267 KKVVKSLESAEQAIEEKHWTECLEAGEKVLKNE  299 (504)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcC
Confidence               1      11234455555555555555544

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

Probab=98.05  E-value=1e-05  Score=50.58  Aligned_cols=20  Identities=10%  Similarity=0.124  Sum_probs=8.3

Q ss_pred             HHHHHHccCcHHHHHHHHHH
Q 043969           51 ILHALLGIRQYKLIEWVYQQ   70 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~   70 (300)
                      +..++.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            34444444444444444433

>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=98.04  E-value=0.00011  Score=53.38  Aligned_cols=51  Identities=12%  Similarity=0.131  Sum_probs=31.9

Q ss_pred             CcCHHHHHHHHHHHHcc-----CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           42 RPFKNSYNAILHALLGI-----RQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      ..+..+|..++..+.+.     |..+-....+..|.+-|+.-|..+|+.|+..+=+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            34555666666666533     4556666666777777777777777777766543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.04  E-value=0.0036  Score=51.76  Aligned_cols=151  Identities=14%  Similarity=0.107  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHhHHHHHHHHHhcCCChHHHHHHHH
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSP-DFHTYNILLHVLGKGDKPLAALNLLN  139 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  139 (300)
                      .+.....+++++..-..--..+|..+|+...+..-++.|..+|.++.+.+..+ ++.+..+++..++ .++..-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            34444455554443212123355556666666666667777777776665444 4555566666554 356666777776


Q ss_pred             HHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          140 HMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       140 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      --.+. +..++.--...++.+...++-..+..+|+.....++.|+  ...|..++..-..-|+...+.++-+++..
T Consensus       426 LGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            54443 222333344556666666666777777777666644443  34666677666666777666666665543

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

Probab=98.03  E-value=0.00032  Score=56.85  Aligned_cols=90  Identities=8%  Similarity=-0.088  Sum_probs=62.2

Q ss_pred             HHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043969           18 CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLD   97 (300)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (300)
                      ..+...|++++|++.+.+....+ +-+...|..+..++...|++++|+..++++++.... +...|..+..++...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCHH
Confidence            44455677777777777776653 334456677777777777777777777777766432 5666777777777777777


Q ss_pred             HHHHHHHHHHhC
Q 043969           98 QFHRLLDEMGRS  109 (300)
Q Consensus        98 ~a~~~~~~~~~~  109 (300)
                      +|...|+...+.
T Consensus        88 eA~~~~~~al~l   99 (356)
T PLN03088         88 TAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHh
Confidence            777777777665

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

Probab=98.02  E-value=0.0016  Score=56.56  Aligned_cols=28  Identities=21%  Similarity=0.302  Sum_probs=17.9

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          184 DVVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       184 ~~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      |....-.+.+.|-..|++.+|..+|.+.
T Consensus       966 d~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  966 DKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             cHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            4445556666677777777777776654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.00  E-value=0.00095  Score=58.93  Aligned_cols=183  Identities=7%  Similarity=-0.010  Sum_probs=124.7

Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043969           25 LARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLD  104 (300)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (300)
                      +...++..|-+..+.++ .-...|..|...|+...+...|.+.|+...+.... +..........|++..+++.|..+.-
T Consensus       473 ~~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHH
Confidence            46667777766655431 12337888888888888888888899888876533 67778888888999999998888743


Q ss_pred             HHHhCC-CCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC
Q 043969          105 EMGRSG-FSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP  183 (300)
Q Consensus       105 ~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (300)
                      ...+.. ...-...|....-.|.+.++..+++.-|+...... |.|...|..+.++|..+|.+..|.++|......  .|
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            332221 00011122233345667788888888888877653 457788889999999999999999999887664  34


Q ss_pred             ccccHHHH--HHHHHhcCCHHHHHHHHHHHHH
Q 043969          184 DVVCYTVM--ITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       184 ~~~~~~~l--i~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      +. .|...  ....+..|.+.+|...+.....
T Consensus       628 ~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  628 LS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             Hh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            32 33322  2234668888888888877654

>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=97.98  E-value=0.00015  Score=52.65  Aligned_cols=49  Identities=16%  Similarity=0.266  Sum_probs=27.0

Q ss_pred             CHhHHHHHHHHHhc-----CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh
Q 043969          114 DFHTYNILLHVLGK-----GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR  162 (300)
Q Consensus       114 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (300)
                      +-.+|..+++.|.+     .|..+-....+..|.+-|+.-|..+|+.|++.+=+
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            44444444444432     35555555566666666666666666666665543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=97.96  E-value=0.00042  Score=56.21  Aligned_cols=93  Identities=13%  Similarity=-0.028  Sum_probs=80.9

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCC
Q 043969           51 ILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDK  130 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (300)
                      -...+...|+++.|++.|+++++.... +...|..+..++...|++++|+..++.+.... +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            345667889999999999999988644 77888888999999999999999999998875 4567788899999999999


Q ss_pred             hHHHHHHHHHHHHcC
Q 043969          131 PLAALNLLNHMKEVG  145 (300)
Q Consensus       131 ~~~a~~~~~~~~~~~  145 (300)
                      +++|...|++..+..
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999998863

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.93  E-value=0.00039  Score=49.94  Aligned_cols=93  Identities=12%  Similarity=-0.017  Sum_probs=44.9

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP--DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIR  228 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  228 (300)
                      ..+..+...+...|++++|...|+........+  ...++..+...+...|++++|+..+++..+.. +....++..+..
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            334444555555566666666665554432111  12245555555666666666666666555431 112333444444


Q ss_pred             HHh-------ccCCHHHHHHHHH
Q 043969          229 GFC-------MAGKFDEACTMMK  244 (300)
Q Consensus       229 ~~~-------~~~~~~~a~~~~~  244 (300)
                      .+.       ..|+++.|...++
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHH
Confidence            444       4555554443333

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

Probab=97.90  E-value=0.0037  Score=49.07  Aligned_cols=196  Identities=14%  Similarity=0.180  Sum_probs=117.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCCCC--H
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDE----GYAP-DILTYNIVMCAKYRLGKLDQFHRLLDEMG----RSGFSPD--F  115 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~--~  115 (300)
                      .|......|...+++++|.+.|.+..+.    +-+. -...|......+ +..++++|.+.+++..    ..| .|+  .
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~~~~~A~~~y~~~G-~~~~aA  114 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCY-KKGDPDEAIECYEKAIEIYREAG-RFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHHHHHHHHHHHHHCT--HHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHHHHHHHHHHHHhcC-cHHHHH
Confidence            4555566677778888877777766432    1111 122344444444 4448888888877763    334 233  3


Q ss_pred             hHHHHHHHHHhcC-CChHHHHHHHHHHHHc----CCCCc--HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC-----C
Q 043969          116 HTYNILLHVLGKG-DKPLAALNLLNHMKEV----GFDPS--VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCM-----P  183 (300)
Q Consensus       116 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~  183 (300)
                      ..+..+...|... |+++.|++.|++..+.    + .+.  ...+..+...+.+.|++++|..+|+++......     .
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~  193 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKY  193 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccch
Confidence            3567777888888 9999999999987653    2 111  345677888899999999999999998765322     1


Q ss_pred             ccc-cHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHhccCC---HHHHHHHHHHH
Q 043969          184 DVV-CYTVMITSYIAAGELEKAQDLFDGMITK--GQLPN--VFTYNSMIRGFCMAGK---FDEACTMMKEM  246 (300)
Q Consensus       184 ~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~~~~~---~~~a~~~~~~~  246 (300)
                      +.. .|-..+-++...|++-.|...+++....  ++..+  ......|+.+|-. ||   +.++..-|+.+
T Consensus       194 ~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~-~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  194 SAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE-GDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT-T-CCCHHHHCHHHTTS
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh-CCHHHHHHHHHHHccc
Confidence            221 2334445667789999999999998765  22222  3455667777643 44   44444444433

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.88  E-value=0.002  Score=43.01  Aligned_cols=55  Identities=15%  Similarity=0.170  Sum_probs=24.3

Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCc--HhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPS--VLHFTTLMDGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      ++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|..+++....
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444455555555555444443322  12233344444445555555555544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.86  E-value=0.0029  Score=42.23  Aligned_cols=91  Identities=11%  Similarity=0.034  Sum_probs=50.0

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHhc
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITKGQL--PNVFTYNSMIRGFCM  232 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~  232 (300)
                      ..++-..|+.++|..+|+.....|....  ...+-.+..++...|++++|..++++.......  -+......+..++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            3455666677777777776666654433  234445556666667777777777666554211  011222223345556


Q ss_pred             cCCHHHHHHHHHHHH
Q 043969          233 AGKFDEACTMMKEME  247 (300)
Q Consensus       233 ~~~~~~a~~~~~~~~  247 (300)
                      .|+.++|++.+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            666666666665444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.84  E-value=0.0033  Score=55.79  Aligned_cols=181  Identities=11%  Similarity=0.029  Sum_probs=112.9

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHH
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNH  140 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (300)
                      ...++..|-+..+..+. =...|..|...|....+...|.+.|+...+.. ..+........+.|.+..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            44555555544444222 23466677777777677778888888877664 44666777788888888888888877333


Q ss_pred             HHHcCCCCcH--hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          141 MKEVGFDPSV--LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       141 ~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      .-+.. +.-.  ..|....-.|.+.++..++..-|+...... +.|...|..+..+|...|++..|.++|.+....  +|
T Consensus       552 ~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  552 AAQKA-PAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             Hhhhc-hHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            22211 1111  112223334667777888888887776653 336677888888888888888888888877664  33


Q ss_pred             CHHHHHHHH--HHHhccCCHHHHHHHHHHHHH
Q 043969          219 NVFTYNSMI--RGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       219 ~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +. +|...-  -.-+..|.+.+|...+.....
T Consensus       628 ~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  628 LS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             Hh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            32 222222  223456788888877776654

>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=97.82  E-value=0.00012  Score=43.67  Aligned_cols=52  Identities=15%  Similarity=0.317  Sum_probs=30.1

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          197 AAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      +.|++++|+++|+++.+.... +...+..+..+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456666666666666554322 5555556666666666666666666666554

...

>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=97.80  E-value=0.00013  Score=43.49  Aligned_cols=51  Identities=10%  Similarity=0.102  Sum_probs=24.2

Q ss_pred             cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           58 IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .|++++|+++|+++.+..+. +...+..+..++.+.|++++|.++++.+...
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44555555555555444322 4444444555555555555555555554444

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.80  E-value=0.0008  Score=53.65  Aligned_cols=274  Identities=12%  Similarity=0.029  Sum_probs=167.4

Q ss_pred             hHHHHHHH--HHhhccccHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHHHccCcHHHHHHHHHHhh--hC--CCC-C
Q 043969           10 ARTFNILI--CTCGEVGLARKVVERFIKSKLFNFRPFK----NSYNAILHALLGIRQYKLIEWVYQQMS--DE--GYA-P   78 (300)
Q Consensus        10 ~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~--~~~-~   78 (300)
                      ..+|..-+  .-+++.|+.+.-.+.|+...+.| .-|.    .+|..|.++|.-.+++++|+++...=+  .+  |-+ -
T Consensus        15 ~SCleLalEGERLck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklG   93 (639)
T KOG1130|consen   15 RSCLELALEGERLCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLG   93 (639)
T ss_pred             hHHHHHHHHHHHHHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhc
Confidence            33444444  34689999999999999988877 2332    268888888888899999988764211  11  100 0


Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHH----HHhCCCC-CCHhHHHHHHHHHhcCCC--------------------hHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDE----MGRSGFS-PDFHTYNILLHVLGKGDK--------------------PLA  133 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~~~-~~~~~~~~l~~~~~~~~~--------------------~~~  133 (300)
                      .......+...+.-.|.+++|+-.-.+    ..+.|-. .....+-.+.+.|...|+                    ++.
T Consensus        94 EAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~  173 (639)
T KOG1130|consen   94 EAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALEN  173 (639)
T ss_pred             cccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHH
Confidence            122223344445556677776554322    1222211 122344455555554432                    233


Q ss_pred             HHHHHHHHHH----cCCC-CcHhhHHHHHHHHHhCCCHHHHHHHHHHHH----hCCCC-CccccHHHHHHHHHhcCCHHH
Q 043969          134 ALNLLNHMKE----VGFD-PSVLHFTTLMDGLSRAGNLDACKYFFDEMA----NKGCM-PDVVCYTVMITSYIAAGELEK  203 (300)
Q Consensus       134 a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~li~~~~~~~~~~~  203 (300)
                      |.++|.+=.+    .|-. ..-..|..|.+.|.-.|+++.|....+.-.    +.|-+ .....+..+..++.-.|+++.
T Consensus       174 Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~  253 (639)
T KOG1130|consen  174 AVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFEL  253 (639)
T ss_pred             HHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHh
Confidence            4444443221    1111 112346667777777889999987765432    22221 134567788888999999999


Q ss_pred             HHHHHHHHHH----CCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHHHHH----C-CCCCCHHHHHHHHHHHHhcCCHHH
Q 043969          204 AQDLFDGMIT----KGQL-PNVFTYNSMIRGFCMAGKFDEACTMMKEMES----R-GCNPNFLVYNTLVSNLRNAGKLAE  273 (300)
Q Consensus       204 a~~~~~~~~~----~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~li~~~~~~g~~~~  273 (300)
                      |.+.|+.-..    .|-+ ....+...|...|.-..++++|+..+.+-..    . ...-....+.+|..+|...|..++
T Consensus       254 A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~k  333 (639)
T KOG1130|consen  254 AIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRK  333 (639)
T ss_pred             HHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHH
Confidence            9998887543    2221 2345566788888888889999988776442    1 122356789999999999999999


Q ss_pred             HHHHHHHHHHc
Q 043969          274 AHEVIRHMVEK  284 (300)
Q Consensus       274 a~~~~~~~~~~  284 (300)
                      |+.+.+.-++.
T Consensus       334 Al~fae~hl~~  344 (639)
T KOG1130|consen  334 ALYFAELHLRS  344 (639)
T ss_pred             HHHHHHHHHHH
Confidence            99888776654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.78  E-value=0.0044  Score=52.78  Aligned_cols=136  Identities=15%  Similarity=0.111  Sum_probs=82.0

Q ss_pred             CCCCCHhhHHHHHHHHHhc--C---CHHHHHHHHHHHHhCCCCCC-HhHHHHHHHHHhcC--------CChHHHHHHHHH
Q 043969           75 GYAPDILTYNIVMCAKYRL--G---KLDQFHRLLDEMGRSGFSPD-FHTYNILLHVLGKG--------DKPLAALNLLNH  140 (300)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~--~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~  140 (300)
                      ..+.+...|...+.+....  +   +.+.|..+|++..+..  |+ ...+..+..++...        .+...+.+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            3445667777776654332  2   2556777777776653  44 33333333222111        112334444444


Q ss_pred             HHHc-CCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          141 MKEV-GFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       141 ~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      .... ..+.+...|..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3332 123345666666666666788888888888888764  57777888888888888888888888887765

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.76  E-value=0.0059  Score=52.00  Aligned_cols=143  Identities=11%  Similarity=0.062  Sum_probs=99.0

Q ss_pred             CCCCCHhHHHHHHHHHhc--C---CChHHHHHHHHHHHHcCCCCc-HhhHHHHHHHHHhC--------CCHHHHHHHHHH
Q 043969          110 GFSPDFHTYNILLHVLGK--G---DKPLAALNLLNHMKEVGFDPS-VLHFTTLMDGLSRA--------GNLDACKYFFDE  175 (300)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~  175 (300)
                      +.+.+...|...+.+...  .   ++...|..+|++..+.  .|+ ...+..+..++...        .++..+.+....
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            346788889888887433  2   2367899999999986  444 34444433333221        123444555544


Q ss_pred             HHhC-CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC
Q 043969          176 MANK-GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN  254 (300)
Q Consensus       176 ~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  254 (300)
                      .... ....+...|..+.......|++++|...+++..+.+  |+...|..+...+...|+.++|.+.+++....  .|.
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~  485 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPG  485 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC
Confidence            3332 123345677777666777899999999999999864  68889999999999999999999999998875  455


Q ss_pred             HHHH
Q 043969          255 FLVY  258 (300)
Q Consensus       255 ~~~~  258 (300)
                      ..+|
T Consensus       486 ~pt~  489 (517)
T PRK10153        486 ENTL  489 (517)
T ss_pred             CchH
Confidence            4443

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

Probab=97.75  E-value=0.0087  Score=44.46  Aligned_cols=50  Identities=14%  Similarity=0.112  Sum_probs=31.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESR--GCNPNFLVYNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~  275 (300)
                      +..-|.+.|.+..|..-++.+++.  +.+........++.+|.+.|..+.+.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            566788888888888888888775  11112245566777788888777443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.70  E-value=0.016  Score=46.08  Aligned_cols=111  Identities=14%  Similarity=0.188  Sum_probs=76.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC  231 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (300)
                      +.+.-+.-+...|+...|.++-.+..    .|+...|-..+.+++..++|++-.++-..   . -  ++.-|...+.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k-K--sPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K-K--SPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C-C--CCCChHHHHHHHH
Confidence            34455666677788888777766653    46888888888899988988887776442   1 1  3466888888888


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          232 MAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      +.|+..+|..++.++     +     +..-+..|.+.|++.+|.+.--+..
T Consensus       249 ~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A~~~k  289 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEAFKEK  289 (319)
T ss_pred             HCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            888888888887661     1     1344566677777777766544433

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

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.70  E-value=0.0013  Score=50.25  Aligned_cols=99  Identities=9%  Similarity=-0.033  Sum_probs=55.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHH
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDAC  169 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (300)
                      +.+.+++.+|+..|.+..... +.|.+-|..-..+|.+.|.++.|++-.+...... +....+|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            345566666666666666553 3344445555666666666666666655555532 22334566666666666666666


Q ss_pred             HHHHHHHHhCCCCCccccHHHHH
Q 043969          170 KYFFDEMANKGCMPDVVCYTVMI  192 (300)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li  192 (300)
                      .+.|+...+.  .|+-.+|-.=+
T Consensus       169 ~~aykKaLel--dP~Ne~~K~nL  189 (304)
T KOG0553|consen  169 IEAYKKALEL--DPDNESYKSNL  189 (304)
T ss_pred             HHHHHhhhcc--CCCcHHHHHHH
Confidence            6666665553  45554544333

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

Probab=97.70  E-value=0.00032  Score=41.32  Aligned_cols=55  Identities=13%  Similarity=0.131  Sum_probs=27.7

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043969           53 HALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGR  108 (300)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (300)
                      ..+.+.|++++|...|+++++..+. +...+..+..++...|++++|...|+.+.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555555555554322 444555555555555555555555555543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.69  E-value=0.0095  Score=44.87  Aligned_cols=132  Identities=10%  Similarity=-0.013  Sum_probs=67.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHH-----H
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTT-----L  156 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l  156 (300)
                      ..+.++..+...+.+.-....+.+..+..-+.++.....|.+.-.+.||.+.|...|++..+..-..+..+++.     .
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            34445555555555555555566655554344555556666666666666666666665544322222222222     2


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      ...|.-.+++..|...+.+..... .-+....|.-.-+..-.|+...|.+.+..|.+.
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            233444556666666665555442 123333344333444456666666666666654

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

Probab=97.67  E-value=0.0004  Score=40.87  Aligned_cols=55  Identities=16%  Similarity=0.247  Sum_probs=27.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          193 TSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ..+.+.|++++|...|+++.+.... +...+..+..++...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555555555554311 444555555555555555555555555544

>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=97.66  E-value=0.0005  Score=41.02  Aligned_cols=64  Identities=17%  Similarity=0.194  Sum_probs=38.6

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 043969          219 NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAG-KLAEAHEVIRHMVE  283 (300)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~  283 (300)
                      +..+|..+...+...|++++|+..|++..+.. +.+...+..+..++...| ++++|++.+++.++
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            34556666666666666666666666666642 224455566666666666 56666666666554

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.66  E-value=0.0014  Score=50.09  Aligned_cols=96  Identities=15%  Similarity=0.179  Sum_probs=60.8

Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKA  204 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  204 (300)
                      ..+.+++.+|+..|.+.++.. +-|.+-|..-..+|.+.|.++.|.+=-+..+... +-...+|..|-.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            455677777777777777652 3455556666667777777777766666665542 11345677777777777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHH
Q 043969          205 QDLFDGMITKGQLPNVFTYN  224 (300)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~  224 (300)
                      ++.|++.++  +.|+-.+|-
T Consensus       169 ~~aykKaLe--ldP~Ne~~K  186 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYK  186 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHH
Confidence            777776665  345555443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.66  E-value=0.0024  Score=49.19  Aligned_cols=94  Identities=11%  Similarity=0.063  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc----ccHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHH
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV----VCYTVMITSYIAAGELEKAQDLFDGMITKG--QLPNVFTYNSM  226 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~~~~~l  226 (300)
                      |...+..+.+.|++++|...|+.+.+.  .|+.    ..+-.+..+|...|++++|...|+.+.+.-  .......+..+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            333333334445555555555555544  2222    244445555555555555555555554431  11122333334


Q ss_pred             HHHHhccCCHHHHHHHHHHHHH
Q 043969          227 IRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ...+...|+.++|..+++.+.+
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            4444455555555555555554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.63  E-value=0.0042  Score=47.93  Aligned_cols=100  Identities=14%  Similarity=0.052  Sum_probs=68.6

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC--CCCCHHHHHHH
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLP--NVFTYNSMIRGFCMAGKFDEACTMMKEMESRG--CNPNFLVYNTL  261 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l  261 (300)
                      ..|...+..+.+.|++++|...|+.+.+.....  ....+..+..+|...|++++|...|+.+.+.-  -+.....+..+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            345555555566788888888888888753221  13466677888888888888888888887641  11123445555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          262 VSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       262 i~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ...+...|+.++|.++|+++++..
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            667778888888888888888754

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.59  E-value=0.0075  Score=42.12  Aligned_cols=72  Identities=17%  Similarity=0.254  Sum_probs=48.0

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES-----RGCNPNFLVYN  259 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  259 (300)
                      ....++..+...|++++|..+.+.+.... +.+...|..+|.+|...|+..+|.+.|+.+..     .|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            34556666777888888888888887763 33777888888888888888888888887753     47888776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.57  E-value=0.00049  Score=41.07  Aligned_cols=61  Identities=8%  Similarity=0.080  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG-KLDQFHRLLDEMGR  108 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  108 (300)
                      +|..+...+...|++++|+..|++.++.... +...|..+..++...| ++++|++.+++..+
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4555555555555555555555555554322 4445555555555555 45555555555443

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.57  E-value=0.014  Score=41.68  Aligned_cols=128  Identities=17%  Similarity=0.199  Sum_probs=83.8

Q ss_pred             CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHH
Q 043969          147 DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG---QLPNVFTY  223 (300)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~  223 (300)
                      .|+......|..+....|+..+|...|++....-...|....-.+.++....+++..|...++++.+..   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            566666667777788888888888888777655445566666677777777788888888887776642   2233  33


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043969          224 NSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVI  278 (300)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  278 (300)
                      ..+.+.+...|++.+|..-|+.....  -|+...-......+.+.|+.+++..-+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            45566777778888888888777764  444444333444456666555544333

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

Probab=97.53  E-value=0.012  Score=45.34  Aligned_cols=113  Identities=12%  Similarity=0.050  Sum_probs=82.5

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcC---CChHHHHHHHHHHHHcCCCCcHhhHH
Q 043969           78 PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG---DKPLAALNLLNHMKEVGFDPSVLHFT  154 (300)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (300)
                      -|...|-.|...|...|+.+.|..-|.+..+.. ++++..+..+..++...   ....++..+|+++.... +.+..+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            378888888899999999999998888887764 45666666666654433   23456888888888763 34566667


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHH
Q 043969          155 TLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  194 (300)
                      .|...+...|++.+|...|+.|.+.  -|....+..+|..
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie~  269 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHHH
Confidence            7777888889999999999988886  3444556666554

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

Probab=97.51  E-value=0.02  Score=44.10  Aligned_cols=102  Identities=8%  Similarity=0.062  Sum_probs=83.1

Q ss_pred             CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC---CCHHHHHHHHHHHHhCCCCCccccH
Q 043969          112 SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA---GNLDACKYFFDEMANKGCMPDVVCY  188 (300)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~  188 (300)
                      +-|...|-.|...|...|+.+.|..-|....+.. +++...+..+..++...   ....++..+|+++.... +-|..+.
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            6789999999999999999999999999998863 45666666666665433   34578999999998873 3466677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKG  215 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~  215 (300)
                      ..+...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            778888999999999999999999873

>PRK15331 chaperone protein SicA; Provisional

Probab=97.47  E-value=0.017  Score=40.48  Aligned_cols=88  Identities=14%  Similarity=0.028  Sum_probs=51.5

Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH
Q 043969          159 GLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      -+...|++++|..+|.-+...+. -+..-|..|..++-..+++++|+..|......+.. |+..+-....++...|+.+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHH
Confidence            34456777777777766655431 23444555555666666777777766665444321 33334445666666677777


Q ss_pred             HHHHHHHHHH
Q 043969          239 ACTMMKEMES  248 (300)
Q Consensus       239 a~~~~~~~~~  248 (300)
                      |...|....+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            7776666665

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

Probab=97.45  E-value=0.026  Score=41.96  Aligned_cols=55  Identities=13%  Similarity=0.042  Sum_probs=23.9

Q ss_pred             hhccccHHHHHHHHHHhhhcCCC-cC-HHHHHHHHHHHHccCcHHHHHHHHHHhhhC
Q 043969           20 CGEVGLARKVVERFIKSKLFNFR-PF-KNSYNAILHALLGIRQYKLIEWVYQQMSDE   74 (300)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (300)
                      +.+.|++.+|.+.|+.+...... |- ....-.++.++.+.|+++.|...++++++.
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34445555555555554433110 11 113334445555555555555555555544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.45  E-value=0.02  Score=40.81  Aligned_cols=133  Identities=15%  Similarity=0.063  Sum_probs=80.1

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC-CcHhhHHH
Q 043969           77 APDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFD-PSVLHFTT  155 (300)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  155 (300)
                      .|+...--.+..+..+.|+..+|...|++...--..-|....-.+.++....+++..|...++++.+.... -++.+.-.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            45555556666777777777777777777665444456666666667777777777777777777664210 11223345


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      +.+.+...|.+..|+.-|+.....  -|+...-..-...+.+.|+.+++..-+..+
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            566677777777777777777665  344433333333445566555554444333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.40  E-value=0.033  Score=42.14  Aligned_cols=141  Identities=11%  Similarity=0.148  Sum_probs=103.1

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHH----
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMI----  192 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li----  192 (300)
                      +-..++......+.+.-....+.+..+...+.++.....+.+.-.+.||.+.|...|+...+..-..+..+.+.++    
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            3445566666778888888899999887667778888888888899999999999999887654455555555544    


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043969          193 -TSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNT  260 (300)
Q Consensus       193 -~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (300)
                       ..|.-.+++.+|...+.++...+.+ |+...|.-.-+....|+...|.+.++.|.+.  .|...+.++
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhh
Confidence             3455577888888888888776443 5566666555666678999999999999875  455444443

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

Probab=97.38  E-value=0.00088  Score=41.09  Aligned_cols=63  Identities=24%  Similarity=0.329  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHC----CC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          221 FTYNSMIRGFCMAGKFDEACTMMKEMESR----GC-NPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      .+++.+...|...|++++|+..+++..+.    |- .|+ ..++..+..++...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34566666666666666666666665532    11 111 34555666666677777777777666543

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.36  E-value=0.052  Score=46.82  Aligned_cols=32  Identities=13%  Similarity=0.128  Sum_probs=21.4

Q ss_pred             CcCHHHHHHHHHHHHccCcHHHHHHHHHHhhh
Q 043969           42 RPFKNSYNAILHALLGIRQYKLIEWVYQQMSD   73 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (300)
                      .|....|..+.......-.++.|+..|-+...
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~d  720 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGD  720 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhcc
Confidence            46666777777777777777777776655543

>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=97.35  E-value=0.0057  Score=41.24  Aligned_cols=51  Identities=10%  Similarity=0.046  Sum_probs=41.2

Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHH
Q 043969          215 GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES-RGCNPNFLVYNTLVSNL  265 (300)
Q Consensus       215 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~  265 (300)
                      ...|+..+..+++.+|+..+++..|.++++...+ .+++.+..+|..|++-.
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4568888888888888888899999988888876 46777788888888744

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.34  E-value=0.04  Score=47.07  Aligned_cols=38  Identities=5%  Similarity=0.049  Sum_probs=17.4

Q ss_pred             HHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHH
Q 043969           29 VVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQ   69 (300)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   69 (300)
                      .+..++++++.|..|+..   .+...++-.|++.+|-++|.
T Consensus       619 li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk  656 (1081)
T KOG1538|consen  619 LISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFK  656 (1081)
T ss_pred             HHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHH
Confidence            333444445555445442   22333444455555555553

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.33  E-value=0.0023  Score=44.70  Aligned_cols=69  Identities=22%  Similarity=0.311  Sum_probs=37.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHH-----HcCCCCcHhh
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMK-----EVGFDPSVLH  152 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  152 (300)
                      ...++..+...|++++|.++.+.+.... |.+...|..++.++...|+...|.+.|+.+.     +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3444555556666666666666666554 4455666666666666666666666666553     2356665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.32  E-value=0.0064  Score=41.00  Aligned_cols=46  Identities=15%  Similarity=0.278  Sum_probs=19.5

Q ss_pred             CCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc-CCCCcHhhHHHHHH
Q 043969          113 PDFHTYNILLHVLGKGDKPLAALNLLNHMKEV-GFDPSVLHFTTLMD  158 (300)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  158 (300)
                      |+..+..+++.+|+..+++..|+++++...+. +++.+..+|..|++
T Consensus        50 Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   50 PTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            44444444444444444444444444444332 23333344444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.029  Score=45.11  Aligned_cols=153  Identities=14%  Similarity=0.018  Sum_probs=100.8

Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH--HHHhCCCHHHHHHHHHHHHhCCCCCccccH-------------
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD--GLSRAGNLDACKYFFDEMANKGCMPDVVCY-------------  188 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------  188 (300)
                      ++.-.|+.++|.+.--...+..   ....+..+++  ++.-.++.+.+...|++....  .|+...-             
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHH
Confidence            3445666666666655555432   1122333333  334466778888888877665  3432221             


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHH---H
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITK---GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTL---V  262 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---i  262 (300)
                      ..-.+-..+.|++..|.+.|.+.+..   ...|+...|.....+..+.|+.++|+.-.++..+.    |..-...+   .
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra  328 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRA  328 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHH
Confidence            11233356688999999999998764   45577788888888899999999999988887764    43333333   3


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 043969          263 SNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .++...++|++|.+-+++..+..
T Consensus       329 ~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  329 NCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhc
Confidence            45677789999999999988765

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.25  E-value=0.0038  Score=37.60  Aligned_cols=54  Identities=13%  Similarity=0.219  Sum_probs=27.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .|.+.+++++|.++++.+...+.. +...+.....++...|++++|.+.++...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344555555555555555554222 444444555555555555555555555554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.24  E-value=0.0035  Score=37.73  Aligned_cols=55  Identities=13%  Similarity=0.050  Sum_probs=27.0

Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           54 ALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .+.+.++++.|.++++.+....+. +...+.....++.+.|++++|.+.++...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            344455555555555555544322 4444444445555555555555555555443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.085  Score=42.60  Aligned_cols=155  Identities=14%  Similarity=0.073  Sum_probs=98.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH--HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHH-----------
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH--VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTT-----------  155 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----------  155 (300)
                      ++.-.++.++|.+.--...+..   ....+...++  ++.-.++.+.+...|++....  .|+...-..           
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHH
Confidence            3444566666666655555442   2223333443  344567788888888887765  344432211           


Q ss_pred             --HHHHHHhCCCHHHHHHHHHHHHhC---CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          156 --LMDGLSRAGNLDACKYFFDEMANK---GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGF  230 (300)
Q Consensus       156 --l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  230 (300)
                        =.+-..+.|.+..|.+.|.+.+..   +..|+...|.....+..+.|+.++|+.--++..+.... =...+..-..++
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s-yikall~ra~c~  331 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS-YIKALLRRANCH  331 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH-HHHHHHHHHHHH
Confidence              122346788899999999888764   34556667777777888899999999888877764211 123344445566


Q ss_pred             hccCCHHHHHHHHHHHHHC
Q 043969          231 CMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...++|++|.+-++...+.
T Consensus       332 l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            6778888888888887765

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.16  E-value=0.045  Score=47.17  Aligned_cols=85  Identities=16%  Similarity=0.202  Sum_probs=39.8

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHH-HH
Q 043969          184 DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNT-LV  262 (300)
Q Consensus       184 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-li  262 (300)
                      +....-.+..++.+.|.-++|.+.+-+...    |     ...+..|...++|.+|.++.++..    -|...+.-+ -.
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq~~~----l~qv~tliak~a  917 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQRFQ----LPQVQTLIAKQA  917 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHHhcc----chhHHHHHHHHH
Confidence            334444555555555555555554433211    1     123455556666666666554433    122222211 11


Q ss_pred             HHHHhcCCHHHHHHHHHHH
Q 043969          263 SNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~  281 (300)
                      .-+...++.-+|.+..++.
T Consensus       918 aqll~~~~~~eaIe~~Rka  936 (1189)
T KOG2041|consen  918 AQLLADANHMEAIEKDRKA  936 (1189)
T ss_pred             HHHHhhcchHHHHHHhhhc
Confidence            1234556666666666554

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

Probab=97.15  E-value=0.0013  Score=40.26  Aligned_cols=61  Identities=20%  Similarity=0.377  Sum_probs=34.8

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CC-HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITK----GQL-PN-VFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +++.+...|...|++++|++.|++..+.    |.. |+ ..++..+..++...|++++|.+.+++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555666666666666666666655432    111 11 3456666666667777777776666554

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.13  E-value=0.034  Score=38.48  Aligned_cols=126  Identities=11%  Similarity=0.076  Sum_probs=70.5

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA  197 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  197 (300)
                      ...++..+...+.+.....+++.+...+ +.+....+.++..|++.+ .++....+..      ..+......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            3456666666677777777777777665 356666777777777653 2333333332      1233444556666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043969          198 AGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA-GKFDEACTMMKEMESRGCNPNFLVYNTLVSNLR  266 (300)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  266 (300)
                      .+.++++.-++.++..         +...+..+... ++++.|.+.+.+      ..+...|..++..+.
T Consensus        82 ~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       82 AKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             cCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            7777777776665422         22233333333 666666666553      114455666655544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.13  E-value=0.13  Score=43.71  Aligned_cols=162  Identities=17%  Similarity=0.236  Sum_probs=108.5

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcC-CCCcH-----hhHHHHHHHHHh----CCCHHHHHHHHHHHHhCCCCCccccHH
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVG-FDPSV-----LHFTTLMDGLSR----AGNLDACKYFFDEMANKGCMPDVVCYT  189 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (300)
                      .+++...-.||-+.+++.+.+..+.+ +....     -.|...+..++.    ..+.+.|.++++.+.+.  -|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            33445556788999999888876542 22111     223344433333    45788999999999887  67777765


Q ss_pred             HHH-HHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-
Q 043969          190 VMI-TSYIAAGELEKAQDLFDGMITKG---QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSN-  264 (300)
Q Consensus       190 ~li-~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-  264 (300)
                      ..- +.+...|++++|++.|++.....   .+.....+-.+...+.-..+|++|...|..+.+.. ..+..+|..+..+ 
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            543 55677999999999999765421   11233445566777888899999999999999852 3345555555444 


Q ss_pred             HHhcCCH-------HHHHHHHHHHHHc
Q 043969          265 LRNAGKL-------AEAHEVIRHMVEK  284 (300)
Q Consensus       265 ~~~~g~~-------~~a~~~~~~~~~~  284 (300)
                      +...|+.       ++|.++|.+....
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            4566777       8888888877653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.00  E-value=0.14  Score=41.53  Aligned_cols=164  Identities=13%  Similarity=0.088  Sum_probs=79.4

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcC---CCCcHhhHHHHHHHHHh---CCCHHHHHHHHHHHHhCCCCCccccHHHHHH
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVG---FDPSVLHFTTLMDGLSR---AGNLDACKYFFDEMANKGCMPDVVCYTVMIT  193 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  193 (300)
                      .++-.|....+++..+++.+.+....   +..+...-....-++.+   .|+.++|++++..+......+++.+|..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            44445666666777777766666541   11122222233344445   6667777777666544444556666666655


Q ss_pred             HHHh---------cCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHhccC-CHHHHHHHH---HH-HHHCCCC---C
Q 043969          194 SYIA---------AGELEKAQDLFDGMITKGQLPNVFT---YNSMIRGFCMAG-KFDEACTMM---KE-MESRGCN---P  253 (300)
Q Consensus       194 ~~~~---------~~~~~~a~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~~-~~~~a~~~~---~~-~~~~~~~---~  253 (300)
                      .|-.         ....++|+..|.+.-+..  |+..+   +..|+....... .-.+..++-   .. ..+.|..   .
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            5432         113556666666555432  33322   122222211100 111222222   11 1122322   2


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          254 NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       254 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +--.+.+++.++.-.|+.+.|.+..++|.+..
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            33345566666777777777777777777654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.95  E-value=0.15  Score=41.26  Aligned_cols=167  Identities=13%  Similarity=0.125  Sum_probs=106.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHhHHHHHHHHHhc---CCChHHHHHHHHHHHHcCCCCcHhhHH
Q 043969           81 LTYNIVMCAKYRLGKLDQFHRLLDEMGRSG---FSPDFHTYNILLHVLGK---GDKPLAALNLLNHMKEVGFDPSVLHFT  154 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (300)
                      .+...++-+|....+++...++.+.+....   +.-+..+-....-++.+   .|+.++|++++..+......+++.++.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            334455557888999999999999997651   11123333344445666   899999999999966666677888888


Q ss_pred             HHHHHHHh---------CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC----HHHHHHHH---HH-HHHCCC-
Q 043969          155 TLMDGLSR---------AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE----LEKAQDLF---DG-MITKGQ-  216 (300)
Q Consensus       155 ~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----~~~a~~~~---~~-~~~~~~-  216 (300)
                      .+...|-.         ....++|...|.+.-+.  .|+..+=-.++..+...|.    -.+..++-   .. +.+.|. 
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            77776632         22467888888777654  2444332222323333332    22223332   11 122332 


Q ss_pred             --CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          217 --LPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       217 --~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                        ..+.-.+..++.++.-.|++++|.+..++|.+.
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence              245566788899999999999999999999986

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.94  E-value=0.075  Score=45.49  Aligned_cols=258  Identities=12%  Similarity=0.107  Sum_probs=143.6

Q ss_pred             CCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCC-----------cCHHHHHHHHHHHHccCcH--HHHHHHHHHhh
Q 043969            6 FPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFR-----------PFKNSYNAILHALLGIRQY--KLIEWVYQQMS   72 (300)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~   72 (300)
                      +.|....+.+-+..|...|.+++|..+---    |+.           .+.-.++..=.+|.+.++.  -+...-+++++
T Consensus       552 i~~~evp~~~~m~q~Ieag~f~ea~~iacl----gVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k  627 (1081)
T KOG1538|consen  552 ISAVEVPQSAPMYQYIERGLFKEAYQIACL----GVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERK  627 (1081)
T ss_pred             eecccccccccchhhhhccchhhhhccccc----ceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            444555555556666777777776653211    111           1111334444455544442  33344456677


Q ss_pred             hCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHH-----HHHHHhcCCChHHHHHHHHHHHHcCCC
Q 043969           73 DEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI-----LLHVLGKGDKPLAALNLLNHMKEVGFD  147 (300)
Q Consensus        73 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (300)
                      ++|-.|+...   +...++-.|++.+|.++|.+--..+  .-.+.|+-     ...-+...|..++-..+.++-.+-  .
T Consensus       628 ~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--A  700 (1081)
T KOG1538|consen  628 KRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--A  700 (1081)
T ss_pred             hcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--h
Confidence            7787777643   3355666788888888886542221  11122221     122344455555444443332111  0


Q ss_pred             CcHhhHHHHHHHHHhCCCHHHHHHHHHH------HHhCCC---CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          148 PSVLHFTTLMDGLSRAGNLDACKYFFDE------MANKGC---MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      -+..--.+...++...|+.++|..+.-+      +.+-+.   ..+..+...+...+.+...+.-|-++|.+|-+.    
T Consensus       701 r~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~----  776 (1081)
T KOG1538|consen  701 RNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL----  776 (1081)
T ss_pred             hhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH----
Confidence            0111112344556667777777665322      111111   123445555555566677788888888877542    


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH-----------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          219 NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF-----------LVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                           ..+++.....++|++|..+.++..+.  .||.           .-|...-++|.+.|+-.+|.++++++....
T Consensus       777 -----ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  777 -----KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             -----HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhh
Confidence                 35677888999999999998876653  3332           124455578899999999999999887654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.92  E-value=0.03  Score=42.60  Aligned_cols=87  Identities=16%  Similarity=0.240  Sum_probs=36.4

Q ss_pred             hcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHhcCCHH
Q 043969          197 AAGELEKAQDLFDGMITKGQL--PNVFTYNSMIRGFCMAGKFDEACTMMKEMESR-GCNPN-FLVYNTLVSNLRNAGKLA  272 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~-~~~~~~li~~~~~~g~~~  272 (300)
                      +.|++..|..-|...++....  -....+-.|..++...|++++|..+|..+.+. +-.|. +.++--|..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            344455555544444443111  11222333444455555555555555444432 11111 133334444444555555


Q ss_pred             HHHHHHHHHHH
Q 043969          273 EAHEVIRHMVE  283 (300)
Q Consensus       273 ~a~~~~~~~~~  283 (300)
                      +|...|+++++
T Consensus       233 ~A~atl~qv~k  243 (262)
T COG1729         233 EACATLQQVIK  243 (262)
T ss_pred             HHHHHHHHHHH
Confidence            55555555444

>PRK15331 chaperone protein SicA; Provisional

Probab=96.87  E-value=0.076  Score=37.34  Aligned_cols=88  Identities=7%  Similarity=-0.118  Sum_probs=52.5

Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHH
Q 043969           54 ALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLA  133 (300)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (300)
                      .+...|++++|..+|+-+...++- +..-|..|..++-..+++++|+..|......+ .-|+..+-....++...|+.+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHH
Confidence            344567777777777666654422 44455555555556666777777666654443 2344445555666666667777


Q ss_pred             HHHHHHHHHH
Q 043969          134 ALNLLNHMKE  143 (300)
Q Consensus       134 a~~~~~~~~~  143 (300)
                      |...|....+
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            7666666655

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.84  E-value=0.23  Score=42.16  Aligned_cols=115  Identities=14%  Similarity=0.148  Sum_probs=49.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHHHH-HHHHhcCCChHHHHHHHHHHHHcC---CCCcHhhHHHHHHHHHhCCCHHHHH
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYNIL-LHVLGKGDKPLAALNLLNHMKEVG---FDPSVLHFTTLMDGLSRAGNLDACK  170 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~  170 (300)
                      +.+.|.++++.+.+.  -|+...|... .+.+...|++++|++.|++.....   .+.....+--+.-.+.-..+|++|.
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            445555555555544  2443333222 233444555555555555433210   0111222333344455555555555


Q ss_pred             HHHHHHHhCCCCCccccHHHHHHH-HHhcCCH-------HHHHHHHHHHH
Q 043969          171 YFFDEMANKGCMPDVVCYTVMITS-YIAAGEL-------EKAQDLFDGMI  212 (300)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~-------~~a~~~~~~~~  212 (300)
                      ..|..+.+.. ..+..+|.-+..+ +...|+.       ++|.++|.+..
T Consensus       326 ~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  326 EYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            5555555432 1233333333322 2334444       55555555543

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.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.79  E-value=0.19  Score=40.11  Aligned_cols=110  Identities=15%  Similarity=0.205  Sum_probs=85.3

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHH
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYI  196 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  196 (300)
                      +.+.-+.-+...|+...|.++-.+..    .|+...|-.-+.+++..++|++...+...      +-++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            44445666677888888888866663    46888899999999999999987776432      225688999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          197 AAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      +.|+..+|..+..++      |+    ..-+..|.+.|++.+|.+...+.
T Consensus       249 ~~~~~~eA~~yI~k~------~~----~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI------PD----EERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHhC------Ch----HHHHHHHHHCCCHHHHHHHHHHc
Confidence            999999999988872      12    45677888999999998775543

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

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.75  E-value=0.011  Score=47.46  Aligned_cols=229  Identities=14%  Similarity=0.079  Sum_probs=137.8

Q ss_pred             HHHHccCcHHHHHHHHHHhhhCCCCCCHhh----HHHHHHHHHhcCCHHHHHHHHHH--HHh--CCCC-CCHhHHHHHHH
Q 043969           53 HALLGIRQYKLIEWVYQQMSDEGYAPDILT----YNIVMCAKYRLGKLDQFHRLLDE--MGR--SGFS-PDFHTYNILLH  123 (300)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~--~~~--~~~~-~~~~~~~~l~~  123 (300)
                      .-+++.|+......+|+..++-|-. |..+    |..+..+|.-.+++++|+++...  ...  .|-+ -.......|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            4578999999999999999998844 5444    55566778888899999887532  111  1100 11223334445


Q ss_pred             HHhcCCChHHHHHHHHHH----HHcCC-CCcHhhHHHHHHHHHhCCC--------------------HHHHHHHHHHHH-
Q 043969          124 VLGKGDKPLAALNLLNHM----KEVGF-DPSVLHFTTLMDGLSRAGN--------------------LDACKYFFDEMA-  177 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~-  177 (300)
                      .+--.|.+++|+-.-.+-    .+.|- ......+-.+...|...|+                    ++.|.++|.+=. 
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            555567777765443222    12221 1122344455666655442                    344455554322 


Q ss_pred             ---hCCC-CCccccHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          178 ---NKGC-MPDVVCYTVMITSYIAAGELEKAQDLFDGMIT----KGQL-PNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       178 ---~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                         +.|- -.-...|..|-..|.-.|+++.|+..-+.-..    -|-+ .....+..+..++.-.|+++.|.+.++....
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~  263 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLN  263 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHH
Confidence               1111 11234566777777778899999877654322    2221 2345678888999999999999998876543


Q ss_pred             ----CCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          249 ----RGC-NPNFLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       249 ----~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                          .|- .....+..+|.+.|.-..+++.|+.++++-+
T Consensus       264 LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHL  302 (639)
T KOG1130|consen  264 LAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHL  302 (639)
T ss_pred             HHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence                221 2334556678888888888899988887644

>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=96.72  E-value=0.2  Score=39.31  Aligned_cols=224  Identities=14%  Similarity=0.094  Sum_probs=119.0

Q ss_pred             HccCcHHHHHHHHHHhhhCC--CCCCH------hhHHHHHHHHHhcC-CHHHHHHHHHHHHhC--------CCCCC----
Q 043969           56 LGIRQYKLIEWVYQQMSDEG--YAPDI------LTYNIVMCAKYRLG-KLDQFHRLLDEMGRS--------GFSPD----  114 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~----  114 (300)
                      .+.|+++.|..++.+.....  ..|+.      ..|+.-.. ....+ +++.|...+++..+.        ...|+    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            35566667766666665432  12221      11222222 23344 777666666554222        12233    


Q ss_pred             -HhHHHHHHHHHhcCCChHH---HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHH
Q 043969          115 -FHTYNILLHVLGKGDKPLA---ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTV  190 (300)
Q Consensus       115 -~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (300)
                       ..+...++.+|...+..+.   |.++++.+... .+..+.++..-+..+.+.++.+.+.+++..|... +......+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHH
Confidence             2456677778877776554   55556666444 2333555656677777788899999999998876 2223445555


Q ss_pred             HHHHHHh--cCCHHHHHHHHHHHHHCCCCCCHH-HHHHH----HHHHhccCC------HHHHHHHHHHHHH-CCCCCCHH
Q 043969          191 MITSYIA--AGELEKAQDLFDGMITKGQLPNVF-TYNSM----IRGFCMAGK------FDEACTMMKEMES-RGCNPNFL  256 (300)
Q Consensus       191 li~~~~~--~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l----~~~~~~~~~------~~~a~~~~~~~~~-~~~~~~~~  256 (300)
                      ++..+..  ....+.|...+..+......|... ....+    +-...+.++      .+...++++...+ .+.+.+..
T Consensus       161 ~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~  240 (278)
T PF08631_consen  161 ILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAE  240 (278)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHH
Confidence            5555422  233456666666665554554443 11111    111222222      4445555554333 23334444


Q ss_pred             HHHHHH-------HHHHhcCCHHHHHHHHHHHH
Q 043969          257 VYNTLV-------SNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       257 ~~~~li-------~~~~~~g~~~~a~~~~~~~~  282 (300)
                      +-.++.       ..+.+.+++++|.+.|+-..
T Consensus       241 ~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  241 AASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            433322       33567899999999998554

It is also involved in sporulation [].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.71  E-value=0.37  Score=42.15  Aligned_cols=91  Identities=16%  Similarity=0.170  Sum_probs=59.7

Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          182 MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTL  261 (300)
Q Consensus       182 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  261 (300)
                      ....-+.+--+.-+...|+-.+|.++-.+..    .||-..|..=+.+++..+++++-+++-+...      ++.-|.-.
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PF  750 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPF  750 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhH
Confidence            3444555666666677777777777666543    3677777777778888888877666655433      23445556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 043969          262 VSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       262 i~~~~~~g~~~~a~~~~~~~~  282 (300)
                      +.+|.+.|+.++|.+++.+..
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccC
Confidence            677777777777777766543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.69  E-value=0.063  Score=44.17  Aligned_cols=66  Identities=12%  Similarity=-0.032  Sum_probs=42.4

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHHHccCcHHHHHHHHHHhhhC
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFK----NSYNAILHALLGIRQYKLIEWVYQQMSDE   74 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (300)
                      |.+...++.+..+|.+.|++++|+..|++....  .|+.    .+|..+..+|...|+.++|+..+++.++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            334556666666777777777777777766655  3442    24666677777777777777777766654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.69  E-value=0.048  Score=44.85  Aligned_cols=65  Identities=15%  Similarity=0.085  Sum_probs=41.1

Q ss_pred             CcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc----ccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          148 PSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV----VCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      .+...++.+..+|.+.|++++|...|+...+.  .|+.    .+|..+..+|...|+.++|++.+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34455666666677777777777777666654  3442    23666666667777777777777666654

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.63  E-value=0.14  Score=42.87  Aligned_cols=154  Identities=18%  Similarity=0.127  Sum_probs=81.3

Q ss_pred             ccccHHHHHHHHHHhhhc-CCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043969           22 EVGLARKVVERFIKSKLF-NFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      -.++++++.+....-.-. .++  ..-.+.+++-+.+.|-.+.|+++.+         |+.   .-.....+.|+++.|.
T Consensus       273 ~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  273 LRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNLDIAL  338 (443)
T ss_dssp             HTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHH
T ss_pred             HcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCHHHHH
Confidence            356666666655421111 111  2245666777777777777765532         221   1223445667777776


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      ++.++      ..+...|..|.+...+.|+++-|.+.|.+..+         +..|+-.|...|+.+...++.+.....|
T Consensus       339 ~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  339 EIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            55433      23566777777777777777777777766542         3455556666777766666666655543


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDG  210 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  210 (300)
                            -++....++.-.|+.++..+++.+
T Consensus       404 ------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 ------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  145555555566666666666554

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.59  E-value=0.094  Score=40.80  Aligned_cols=103  Identities=12%  Similarity=0.081  Sum_probs=49.5

Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHH
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK---GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLV  257 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  257 (300)
                      ......+...++..-....+++.+...+-+++..   ...|+...+ ..++.|. .-++++++.++..=++.|+-||..+
T Consensus        60 ~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   60 LPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccchhh
Confidence            3334444444444444455555555555554432   011111111 1222222 1244555555555555566666666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          258 YNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       258 ~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +..+++.+.+.+++.+|.++...|....
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            6666666666666666655555555444

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.18  Score=40.76  Aligned_cols=124  Identities=13%  Similarity=0.170  Sum_probs=83.1

Q ss_pred             HHHHhCCCHHHHHHHHHHHHhC-----CC---------CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043969          158 DGLSRAGNLDACKYFFDEMANK-----GC---------MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTY  223 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~-----~~---------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  223 (300)
                      +.|.+.|++..|..-|+.....     +.         ..-..++..+..++.+.+++.+|+..-.+.+..+. +|....
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 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhHH
Confidence            3556666666666666554321     11         11234567788888999999999999988888743 477777


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCC-HHHHHHHHHHHHHc
Q 043969          224 NSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYN-TLVSNLRNAGK-LAEAHEVIRHMVEK  284 (300)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~~~g~-~~~a~~~~~~~~~~  284 (300)
                      -.=.++|...|+++.|+..|+++++.  .|+..... .++..-.+... .+...++|..|...
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            77888999999999999999999885  55544444 44433333333 34446777777654

>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=96.52  E-value=0.13  Score=34.59  Aligned_cols=58  Identities=21%  Similarity=0.295  Sum_probs=20.0

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          227 IRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +......|+-++-.++..++.+. -.+++...-.+..+|.+.|+..++.+++.++.++|
T Consensus        93 Ld~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   93 LDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33333344444444444333321 12333333333344444444444444444444433

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.50  E-value=0.7  Score=42.76  Aligned_cols=83  Identities=16%  Similarity=0.182  Sum_probs=48.6

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGK  235 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  235 (300)
                      ....+.....+++|.-.|+..-+         ...-+.+|..+|+|++|+.+..++...... -..+-..|+.-+...++
T Consensus       945 ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~e~~k 1014 (1265)
T KOG1920|consen  945 YADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLVEQRK 1014 (1265)
T ss_pred             HHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHHHccc
Confidence            33444455666666666655432         123456677777777777777766432100 11222567777777888


Q ss_pred             HHHHHHHHHHHHH
Q 043969          236 FDEACTMMKEMES  248 (300)
Q Consensus       236 ~~~a~~~~~~~~~  248 (300)
                      +-+|-++..+...
T Consensus      1015 h~eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1015 HYEAAKILLEYLS 1027 (1265)
T ss_pred             chhHHHHHHHHhc
Confidence            8888777776664

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.46  E-value=0.16  Score=34.90  Aligned_cols=52  Identities=13%  Similarity=0.161  Sum_probs=21.9

Q ss_pred             hcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          197 AAGELEKAQDLFDGMITKGQ--LPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +.|++++|.+.|+.+...-.  .-....-..++.+|.+.+++++|...++++++
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            44444444444444443310  01122333444444444444444444444444

>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=96.42  E-value=0.33  Score=38.12  Aligned_cols=223  Identities=15%  Similarity=0.123  Sum_probs=128.6

Q ss_pred             hccccHHHHHHHHHHhhhcC--CCcCHH------HHHHHHHHHHccC-cHHHHHHHHHHhhhC--------CCCCCH---
Q 043969           21 GEVGLARKVVERFIKSKLFN--FRPFKN------SYNAILHALLGIR-QYKLIEWVYQQMSDE--------GYAPDI---   80 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~--~~~~~~------~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~---   80 (300)
                      .+.|+.+.|...+.+.....  ..|+..      .|+.-.. ....+ +++.|..++++..+.        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46789999999998876643  234332      3444444 44555 888888777766443        122332   


Q ss_pred             --hhHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHH
Q 043969           81 --LTYNIVMCAKYRLGKLD---QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTT  155 (300)
Q Consensus        81 --~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (300)
                        .++..++.++...+..+   +|.++++.+.... +-.+.++..-+..+.+.++.+.+.+.+.+|... +......+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHH
Confidence              34566777887777654   5566666665442 334666767778888889999999999999886 3323445566


Q ss_pred             HHHHHHh--CCCHHHHHHHHHHHHhCCCCCccccH-HH-HHH-HH--HhcCC------HHHHHHHHHHHHHC-CCCCCHH
Q 043969          156 LMDGLSR--AGNLDACKYFFDEMANKGCMPDVVCY-TV-MIT-SY--IAAGE------LEKAQDLFDGMITK-GQLPNVF  221 (300)
Q Consensus       156 l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~-~~-li~-~~--~~~~~------~~~a~~~~~~~~~~-~~~p~~~  221 (300)
                      ++..+..  ......+...+..+....+.|....| .. ++. .+  .+.++      .+....++....+. +.+.+..
T Consensus       161 ~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~  240 (278)
T PF08631_consen  161 ILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAE  240 (278)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHH
Confidence            5555522  23345566666666554455554311 11 111 11  11111      44455555543332 2333333


Q ss_pred             H--------HHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          222 T--------YNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       222 ~--------~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +        |+. ...+.+.+++++|.+.|+-..
T Consensus       241 ~~~a~~~LLW~~-~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  241 AASAIHTLLWNK-GKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHH-HHHHHhhcCHHHHHHHHHHHH
Confidence            3        332 334567899999999987543

It is also involved in sporulation [].

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.41  E-value=0.42  Score=39.37  Aligned_cols=146  Identities=14%  Similarity=0.162  Sum_probs=98.8

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG-FSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      ..+|...++.-.+..-++.|..+|-++.+.+ +.+++.++++++..++ .|++.-|.++|+--... ++.+..--+..+.
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            3456667777777777888888888888887 5567777888887765 57788888888875554 2333333456667


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          159 GLSRAGNLDACKYFFDEMANKGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGF  230 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  230 (300)
                      .+...++-+.|..+|+....+ +..+  ...|..+|..-..-|+...+..+=+.+.+.  .|...+......-|
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            777888888888888855433 1222  456888888888888888887777777653  33443333333333

>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=96.41  E-value=0.2  Score=35.55  Aligned_cols=57  Identities=14%  Similarity=0.134  Sum_probs=25.0

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          224 NSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..+++.+...|++-+|.++.+.....    +......++.+..+.+|...-..+++-..++
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444555555555555555443221    1111233444444455544444444444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.38  E-value=0.13  Score=39.24  Aligned_cols=97  Identities=19%  Similarity=0.235  Sum_probs=73.2

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCC--CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC-CHHHHHHHH
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGC--MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQ-LP-NVFTYNSMI  227 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p-~~~~~~~l~  227 (300)
                      .|+.-+.. .+.|++..|...|...++...  .-....+-+|..++...|++++|..+|..+.+.-. .| -+...-.+.
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            57766654 456779999999998887621  11244577888999999999999999988887521 12 246677788


Q ss_pred             HHHhccCCHHHHHHHHHHHHHC
Q 043969          228 RGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .+..+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            8888999999999999998876

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.37  E-value=0.053  Score=41.49  Aligned_cols=91  Identities=19%  Similarity=0.241  Sum_probs=65.7

Q ss_pred             CcCHHHHHHHHHHHHcc-----CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC----------------CHHHHH
Q 043969           42 RPFKNSYNAILHALLGI-----RQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG----------------KLDQFH  100 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~  100 (300)
                      .-|..+|-..+..+...     +..+-.-..++.|.+-|+.-|..+|+.|++.+-+..                +-+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            34555677777666543     445566666778888888888888888887765432                234478


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChH
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPL  132 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (300)
                      .++++|...|+.||-.+-..|++++.+.+.+-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccH
Confidence            88888988898899888888888888877643

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.37  E-value=0.16  Score=34.08  Aligned_cols=89  Identities=18%  Similarity=0.181  Sum_probs=46.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-CCCCCHHH---HHHHHHHHHhcCC
Q 043969          195 YIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR-GCNPNFLV---YNTLVSNLRNAGK  270 (300)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~---~~~li~~~~~~g~  270 (300)
                      ....|+.+.|++.|.+.... .+-+...||.-.+++.-.|+.++|+.=+++..+. |-+ +...   |..-...|...|+
T Consensus        53 laE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhCc
Confidence            34556666666666655554 2224555666666666666666666655555543 211 2111   1112223455566


Q ss_pred             HHHHHHHHHHHHHcC
Q 043969          271 LAEAHEVIRHMVEKG  285 (300)
Q Consensus       271 ~~~a~~~~~~~~~~~  285 (300)
                      .+.|..-|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666666555

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.37  E-value=0.039  Score=42.17  Aligned_cols=101  Identities=19%  Similarity=0.128  Sum_probs=76.6

Q ss_pred             CchHHHHHHHHHhhc-----cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHcc----------------CcHHHHHH
Q 043969            8 TTARTFNILICTCGE-----VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGI----------------RQYKLIEW   66 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~~~~~a~~   66 (300)
                      -|..+|-..+..+..     .+..+-....++.|.+.|+.-|..+|+.|++.+-+-                .+-+-+++
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            355666666666543     356677777888899999999999999999887554                23456889


Q ss_pred             HHHHhhhCCCCCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHh
Q 043969           67 VYQQMSDEGYAPDILTYNIVMCAKYRLGK-LDQFHRLLDEMGR  108 (300)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~  108 (300)
                      ++++|...|+-||-.+-..+++++.+.+- ..+..++.-.|.+
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence            99999999999999999999999988775 3444555545533

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.35  E-value=0.24  Score=41.57  Aligned_cols=130  Identities=13%  Similarity=0.172  Sum_probs=61.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      ..+.++.-+-+.|..+.|+++...         +.   .-.....+.|+++.|.++.++.      .+...|..|.+...
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHH
Confidence            345555555555555555554322         11   1122333455555555443222      24445666666666


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACT  241 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (300)
                      +.|+++-|++.|....+         |..|+-.|...|+.+.-.++.+.....|-      ++....++...|+.++..+
T Consensus       359 ~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  359 RQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             HTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHH
Confidence            66666666666554432         44455555556665555555555444431      3334444444455555555


Q ss_pred             HHH
Q 043969          242 MMK  244 (300)
Q Consensus       242 ~~~  244 (300)
                      ++.
T Consensus       424 lL~  426 (443)
T PF04053_consen  424 LLI  426 (443)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.30  E-value=0.21  Score=34.56  Aligned_cols=125  Identities=15%  Similarity=0.173  Sum_probs=64.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ..++..+...+.......+++.+...+ +.+...++.++..|++.+ ..+.+..+..   .   .+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            445555655666666666666666655 345556666666666543 2333333331   1   1223334456666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA-GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC  231 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (300)
                      +-++++..++..+..         +...+..+... ++++.|.+++.+-      .+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            666666666655422         22233333333 5666666655541      14455665555544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.23  E-value=0.4  Score=37.19  Aligned_cols=140  Identities=16%  Similarity=0.142  Sum_probs=69.9

Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKA  204 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  204 (300)
                      ....|+..+|..+|+...... +-+...--.+..+|...|+.+.|..++..+...--.........-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            345566666666666665542 2233444555666666666666666666654331111111222223334444444444


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcC
Q 043969          205 QDLFDGMITKGQLP-NVFTYNSMIRGFCMAGKFDEACTMMKEMESR--GCNPNFLVYNTLVSNLRNAG  269 (300)
Q Consensus       205 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g  269 (300)
                      ..+-.+.-..   | |...-..+...+...|+.+.|.+.+-.+...  |.. |...-..++..+.--|
T Consensus       223 ~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         223 QDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            4444443332   2 4555555666666666666666655555443  222 3444555555555444

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.20  E-value=0.37  Score=36.55  Aligned_cols=79  Identities=18%  Similarity=0.084  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGY--APDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      ..|+..+. -.+.|++++|...|+.+..+.+  +....+.-.++.++.+.+++++|...+++..+.--......|..-|.
T Consensus        36 ~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylk  114 (254)
T COG4105          36 ELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLK  114 (254)
T ss_pred             HHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHH
Confidence            34554443 4577888888888888876532  12344455556677788888888888888766532222233444444


Q ss_pred             HH
Q 043969          124 VL  125 (300)
Q Consensus       124 ~~  125 (300)
                      ++
T Consensus       115 gL  116 (254)
T COG4105         115 GL  116 (254)
T ss_pred             HH
Confidence            43

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.43  Score=37.04  Aligned_cols=137  Identities=14%  Similarity=0.179  Sum_probs=94.8

Q ss_pred             HHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH
Q 043969          158 DGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFD  237 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  237 (300)
                      ......|+...|...|....... .-+...--.++.+|...|+.+.|..++..+...--.........-+..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            35677899999999999887763 22456677888999999999999999998875532222222223344555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-------hHHHHHHHhhhh
Q 043969          238 EACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG-------KYIHLVSKFKRY  297 (300)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-------~~~~l~~~~~~~  297 (300)
                      +...+-++....  +-|...-..+...+...|+.+.|++.+-.+.+++       .-..+++.+..+
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~  285 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAF  285 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhc
Confidence            555555555543  2266677778888999999999999998888774       444555555443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.16  E-value=0.26  Score=38.92  Aligned_cols=153  Identities=9%  Similarity=0.016  Sum_probs=100.1

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc---CCCCcHhhHHHHHHHHHhCCCHHH
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV---GFDPSVLHFTTLMDGLSRAGNLDA  168 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~  168 (300)
                      ..|+..+|-..++++.+. .|.|...+...=.++.-.|+.+.-...++++...   +.|-.+..-..+.-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            457777777778887765 3667777777777888888888888888887654   122122222334445567888888


Q ss_pred             HHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          169 CKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL---PNVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      |++.-++..+.+ +.|.-.-.+....+.-.|+..++.++..+-...--.   .-...|-...-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            888888777654 345555566777777788888888887664432111   1122344445556667888888888865


Q ss_pred             H
Q 043969          246 M  246 (300)
Q Consensus       246 ~  246 (300)
                      =
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.13  E-value=0.85  Score=40.06  Aligned_cols=117  Identities=14%  Similarity=0.175  Sum_probs=88.8

Q ss_pred             HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043969          150 VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRG  229 (300)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  229 (300)
                      .-+.+--+.-+...|+..+|.++-.+..    -||...|-.-+.+++..+++++-+++-+...      ++.-|...+.+
T Consensus       684 dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~  753 (829)
T KOG2280|consen  684 DLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEA  753 (829)
T ss_pred             cCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHH
Confidence            3344555666777899999988877765    5789999999999999999999888766543      24567788999


Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          230 FCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |.+.|+.++|.+.+.+....         .-...+|.+.|++.+|.+.--+-.+.+
T Consensus       754 c~~~~n~~EA~KYiprv~~l---------~ekv~ay~~~~~~~eAad~A~~~rd~~  800 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRVGGL---------QEKVKAYLRVGDVKEAADLAAEHRDGA  800 (829)
T ss_pred             HHhcccHHHHhhhhhccCCh---------HHHHHHHHHhccHHHHHHHHHHhcChH
Confidence            99999999999988654321         156778888999888877765544433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.12  E-value=0.72  Score=41.03  Aligned_cols=175  Identities=10%  Similarity=0.090  Sum_probs=89.1

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcCHH--HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPFKN--SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL   93 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (300)
                      -++...+...++-|+.+-..-   +..++..  ....-..-+.+.|++++|...|-+-+.. +.|     ..++.-|...
T Consensus       340 kL~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLda  410 (933)
T KOG2114|consen  340 KLDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDA  410 (933)
T ss_pred             HHHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCH
Confidence            344444444555555544332   1122211  2233333445667777776666554432 122     2244455555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHH
Q 043969           94 GKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFF  173 (300)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (300)
                      .++.+-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++|..+-
T Consensus       411 q~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA  486 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLA  486 (933)
T ss_pred             HHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHH
Confidence            6666666677777776653 44445667777777777776655555443 2211  111234555556666666665554


Q ss_pred             HHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          174 DEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       174 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      .....     +......++   -..+++++|++.+..+
T Consensus       487 ~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  487 TKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            43322     222222232   3566777777777665

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.11  E-value=0.3  Score=43.26  Aligned_cols=177  Identities=14%  Similarity=0.148  Sum_probs=109.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH----HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM----CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      ...-+..+.+...++.|..+-+.   .+.  +..+...++    .-+.+.|++++|...+-+.... +.|     ..++.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~---~~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKS---QHL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHh---cCC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHH
Confidence            44566677777777777766543   322  333333333    4456778888888877665433 122     23344


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHH
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEK  203 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  203 (300)
                      -|........-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            455555666667778888888765 55556788889999999888766665544 2211  2234566777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          204 AQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      |..+-.+...     +......++.   ..+++++|++.+..+.
T Consensus       482 a~~LA~k~~~-----he~vl~ille---~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDILLE---DLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHHHHH---HhcCHHHHHHHHhcCC
Confidence            7776655432     3344444444   4588899988887543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.07  E-value=0.073  Score=41.38  Aligned_cols=105  Identities=12%  Similarity=0.101  Sum_probs=78.4

Q ss_pred             CCCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcC---CCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH
Q 043969            4 NGFPTTARTFNILICTCGEVGLARKVVERFIKSKLFN---FRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (300)
                      .|.+.+..+...++..-...++++.+...+-+.+...   ..|+. +-.++++.+.+ -+.++++.++..-++-|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            5677777788888888777888889988887765531   12222 23345554443 4677888888888889999999


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 043969           81 LTYNIVMCAKYRLGKLDQFHRLLDEMGRSG  110 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (300)
                      ++++.+|..+.+.+++.+|.++.-.|....
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            999999999999999999988877775543

>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=96.06  E-value=0.25  Score=33.29  Aligned_cols=68  Identities=12%  Similarity=0.178  Sum_probs=50.9

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 043969          184 DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN  252 (300)
Q Consensus       184 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (300)
                      +.......+.++...|+-+.-.+++.++.+. -.|++...-.+..+|.+.|+..++.+++.+..+.|++
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            4445666778888999999999999998763 4578888899999999999999999999999998864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.97  E-value=0.68  Score=37.50  Aligned_cols=249  Identities=15%  Similarity=0.120  Sum_probs=119.4

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHH--HHHccCcHHHHHHHHHHhhhCCCCCCHh--hHHHHHHHHHhcCCHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILH--ALLGIRQYKLIEWVYQQMSDEGYAPDIL--TYNIVMCAKYRLGKLDQ   98 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~   98 (300)
                      .||...|.+.-.+..+. +..|......++.  +-.-.|+++.|.+-|+.|...   |...  -...|.-..-+.|+.+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            35555555555443321 1223322223332  223457777888878777753   2211  12222233345677777


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcHhh--H----------------------
Q 043969           99 FHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG-FDPSVLH--F----------------------  153 (300)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~----------------------  153 (300)
                      |.++-+..-..- +.-...+...+...+..|+++.|+++++.-.... +.++..-  -                      
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            777666655442 2334566777777777777777777776544321 1122110  1                      


Q ss_pred             ---------------HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC
Q 043969          154 ---------------TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK-GQL  217 (300)
Q Consensus       154 ---------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~  217 (300)
                                     .....++.+.|+..++-.+++.+-+....|+  .+..  -...+.|+  .++.-+++.... ..+
T Consensus       252 A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~l--Y~~ar~gd--ta~dRlkRa~~L~slk  325 (531)
T COG3898         252 ALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IALL--YVRARSGD--TALDRLKRAKKLESLK  325 (531)
T ss_pred             HHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHHH--HHHhcCCC--cHHHHHHHHHHHHhcC
Confidence                           1122344455555555555555544422222  1111  11122332  222222211110 011


Q ss_pred             C-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHc
Q 043969          218 P-NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNL-RNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       218 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~~a~~~~~~~~~~  284 (300)
                      | +..+-..+.++-...|++..|..--+....  ..|....|-.+.+.- ...|+-.++.+.+.+.++.
T Consensus       326 ~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         326 PNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             ccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            1 334444555555566666655554444443  356666666666554 3447777777777766653

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.96  E-value=0.27  Score=39.72  Aligned_cols=91  Identities=14%  Similarity=0.073  Sum_probs=45.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC-----CC---------CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRS-----GF---------SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~-----~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      +.+.+.|++..|..-|+.....     +.         ..-..++..+..++.+.+++..|+..-++....+ +++.-..
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            3456677777777776664332     00         0112334444445555555555555555555542 3344333


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      -.-..++...|+++.|+..|+.+++.
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            34444555555555555555555543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.92  E-value=0.54  Score=37.65  Aligned_cols=125  Identities=12%  Similarity=0.076  Sum_probs=56.4

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhC-----CCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCH------
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANK-----GCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLPNV------  220 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~~------  220 (300)
                      +..++...+.++++++.|+...+.     ........+..|-..|.+..++++|.-+..+..+.    ++. |.      
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~  206 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRA  206 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHH
Confidence            334444455555555555544321     01112334555666666666666655555443321    111 11      


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          221 FTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      .....|.-++...|....|.+..++..+.    |-.+. ......+.+.|...|+.|.|+.-|++.
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            11222333444555555555555544332    22211 123334445566666666665555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.90  E-value=0.45  Score=37.64  Aligned_cols=153  Identities=14%  Similarity=0.110  Sum_probs=107.7

Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHH----HHHHHHHhcCCH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYT----VMITSYIAAGEL  201 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~li~~~~~~~~~  201 (300)
                      -..|+..+|-..++++.+. .|.|...+...=.+|.-.|+.+.-...++.+... -.|+...|.    ...-++...|-+
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            3467788888888888876 5778888888888999999999999999888654 123443332    233345578999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043969          202 EKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR---GCNPNFLVYNTLVSNLRNAGKLAEAHEVI  278 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~  278 (300)
                      ++|++.-++..+.+. .|.-.-......+--.|++.++.++..+-.+.   +.-.-...|....-.+...+.++.|+++|
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 DDAEKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            999999998887643 35566667777777889999999887665432   11111223444455567789999999998


Q ss_pred             HHH
Q 043969          279 RHM  281 (300)
Q Consensus       279 ~~~  281 (300)
                      ++=
T Consensus       271 D~e  273 (491)
T KOG2610|consen  271 DRE  273 (491)
T ss_pred             HHH
Confidence            754

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.75  E-value=0.25  Score=38.36  Aligned_cols=80  Identities=19%  Similarity=0.166  Sum_probs=58.8

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHH-----cCCCCcHhhHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKE-----VGFDPSVLHFT  154 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  154 (300)
                      ..++..++..+...++.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
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            4466677777777888888888888877664 56777788888888888888888888777654     47777777766


Q ss_pred             HHHHHH
Q 043969          155 TLMDGL  160 (300)
Q Consensus       155 ~l~~~~  160 (300)
                      ......
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            666553

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.72  E-value=0.36  Score=32.48  Aligned_cols=91  Identities=12%  Similarity=-0.109  Sum_probs=56.9

Q ss_pred             HHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHh---HHHHHHHHHhcCCC
Q 043969           54 ALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFH---TYNILLHVLGKGDK  130 (300)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~  130 (300)
                      +++..|+.+.|++.|.+.+..-++ ....||.-..++.-.|+.++|+.-+++..+..-..+..   .|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            456677777777777777665322 66777777777777777777777776665442222222   22222334666677


Q ss_pred             hHHHHHHHHHHHHcC
Q 043969          131 PLAALNLLNHMKEVG  145 (300)
Q Consensus       131 ~~~a~~~~~~~~~~~  145 (300)
                      .+.|..-|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            777777777666655

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.68  E-value=0.65  Score=35.07  Aligned_cols=206  Identities=12%  Similarity=0.111  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .|.....+|...+++++|...+.+..+- ...+...|.+       ...+++|.-+.+++.+.  +--...|+.....|.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-------AKayEqaamLake~~kl--sEvvdl~eKAs~lY~  102 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-------AKAYEQAAMLAKELSKL--SEVVDLYEKASELYV  102 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-------HHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHH
Confidence            5666777788888888888877666532 1212222211       12234444455555433  112233455555666


Q ss_pred             cCCChHHHHHHHHHHHHc--CCCCcH--hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          127 KGDKPLAALNLLNHMKEV--GFDPSV--LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~--~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                      ..|.++.|-..+++.-+.  ++.|+.  ..|..-+......++...|.+               .+...-+.+.+..+++
T Consensus       103 E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~e---------------l~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  103 ECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFE---------------LYGKCSRVLVRLEKFT  167 (308)
T ss_pred             HhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHH---------------HHHHhhhHhhhhHHhh
Confidence            666666655555544321  122221  112222222222222222222               2333344555556666


Q ss_pred             HHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhcCCHHHH
Q 043969          203 KAQDLFDGMITK----GQLPN-VFTYNSMIRGFCMAGKFDEACTMMKEMESRG---CNPNFLVYNTLVSNLRNAGKLAEA  274 (300)
Q Consensus       203 ~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a  274 (300)
                      +|-..+.+-...    ..-|+ -..|-..|-.+....|+..|...+++-.+.+   -+-+..+...|+.+| ..|+.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHH
Confidence            655544432211    01112 1334555555666667777777777644321   122445666676665 56666665


Q ss_pred             HHHH
Q 043969          275 HEVI  278 (300)
Q Consensus       275 ~~~~  278 (300)
                      ..++
T Consensus       247 ~kvl  250 (308)
T KOG1585|consen  247 KKVL  250 (308)
T ss_pred             HHHH
Confidence            5544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.62  E-value=0.23  Score=38.52  Aligned_cols=76  Identities=13%  Similarity=0.229  Sum_probs=40.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-----CCCCCCHHHHHHHH
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES-----RGCNPNFLVYNTLV  262 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~li  262 (300)
                      +..++..+...|+++.+...++++..... -+...|..++.+|.+.|+...|+..++.+.+     .|+.|...+.....
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~  234 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYE  234 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHH
Confidence            44455555555555555555555555422 2555555566666666665555555555543     35555555544444


Q ss_pred             HH
Q 043969          263 SN  264 (300)
Q Consensus       263 ~~  264 (300)
                      ..
T Consensus       235 ~~  236 (280)
T COG3629         235 EI  236 (280)
T ss_pred             HH
Confidence            43

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.61  E-value=0.071  Score=28.29  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=9.2

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHH
Q 043969          226 MIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +...|.+.|++++|.+++++..+
T Consensus         7 la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    7 LARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            33334444444444444444333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.57  E-value=0.061  Score=28.55  Aligned_cols=27  Identities=15%  Similarity=0.053  Sum_probs=13.8

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhC
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDE   74 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (300)
                      +..+...+...|++++|+++|++.++.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344445555555555555555555544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.57  E-value=1  Score=36.56  Aligned_cols=230  Identities=11%  Similarity=0.053  Sum_probs=144.5

Q ss_pred             CchHHHHHHHHHh--hccccHHHHHHHHHHhhhcCCCcCHH--HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhH
Q 043969            8 TTARTFNILICTC--GEVGLARKVVERFIKSKLFNFRPFKN--SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTY   83 (300)
Q Consensus         8 ~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (300)
                      .|...+-.|+.+-  .-.|+.+.|.+-|+.|...   |...  -..-|.-..-+.|..+.|...-+.....-.. -...+
T Consensus       116 sDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~  191 (531)
T COG3898         116 SDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ-LPWAA  191 (531)
T ss_pred             ccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC-CchHH
Confidence            3444444455433  3368899999999988753   4433  2333333345667788887777776655322 35677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC---------------------------------------CCCCHhH-HHHHHH
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSG---------------------------------------FSPDFHT-YNILLH  123 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------------------~~~~~~~-~~~l~~  123 (300)
                      ...+...+..|+++.|+++++.-....                                       +.|+..- --....
T Consensus       192 ~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAr  271 (531)
T COG3898         192 RATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVAAR  271 (531)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHHHH
Confidence            788888888888888888887653321                                       1233221 122235


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC-CCCC-ccccHHHHHHHHHhcCCH
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK-GCMP-DVVCYTVMITSYIAAGEL  201 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~li~~~~~~~~~  201 (300)
                      ++.+.|+..++-.+++.+-+..  |.+..+  .+..+.+.|+..  ..-++...+. .++| +..+--.+..+-...|++
T Consensus       272 alf~d~~~rKg~~ilE~aWK~e--PHP~ia--~lY~~ar~gdta--~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~  345 (531)
T COG3898         272 ALFRDGNLRKGSKILETAWKAE--PHPDIA--LLYVRARSGDTA--LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEF  345 (531)
T ss_pred             HHHhccchhhhhhHHHHHHhcC--CChHHH--HHHHHhcCCCcH--HHHHHHHHHHHhcCccchHHHHHHHHHHHhccch
Confidence            6778888999999999988864  443333  233455666533  2223322211 1233 455666777888889999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHC
Q 043969          202 EKAQDLFDGMITKGQLPNVFTYNSMIRGFCM-AGKFDEACTMMKEMESR  249 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~  249 (300)
                      ..|..--+....  ..|....|..|...-.. .||-.++...+.+..+.
T Consensus       346 ~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         346 SAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            888776665544  46788888877776544 59999999999888765

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.52  E-value=0.75  Score=34.75  Aligned_cols=204  Identities=12%  Similarity=0.132  Sum_probs=103.7

Q ss_pred             HHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           13 FNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      |..-..+|....++++|...+.+..+- ...+...|.       ..+.++.|.-+.+++.+.  +--...|+-....|..
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            334445555566677776666554321 111211111       112344455555555443  1123445556666777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc---C--CCCcHhhHHHHHHHHHhCCCHH
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV---G--FDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      .|..+.|-..+++.-+.                ...-++++|+++|++....   +  ...-...+..+-+.+.+...++
T Consensus       104 ~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             hCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            77776666665554321                1233455566665554332   0  0111223344445556666666


Q ss_pred             HHHHHHHHHHhC----CCCCcc-ccHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHhccCCHHHH
Q 043969          168 ACKYFFDEMANK----GCMPDV-VCYTVMITSYIAAGELEKAQDLFDGMITKG---QLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       168 ~a~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      +|-..+..-...    .-.++. ..|...|-.+.-..++..|...++.-.+.+   -.-+..+...|+.+| ..||.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHH
Confidence            655554332211    001111 235555666677778888888888744331   123567788888887 45788877


Q ss_pred             HHHH
Q 043969          240 CTMM  243 (300)
Q Consensus       240 ~~~~  243 (300)
                      ..++
T Consensus       247 ~kvl  250 (308)
T KOG1585|consen  247 KKVL  250 (308)
T ss_pred             HHHH
Confidence            6654

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.47  E-value=1.2  Score=36.87  Aligned_cols=95  Identities=19%  Similarity=0.263  Sum_probs=71.1

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHH
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKG-QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVY-NTLVS  263 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~  263 (300)
                      ..|...+.+-.+..-++.|..+|-+..+.| ..+++..+++++..++ .|+...|.++|+--...  .||...| ...+.
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 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHH
Confidence            456677777778888999999999999988 5678888899988775 47888999999865553  3444433 45556


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 043969          264 NLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~  283 (300)
                      -+...++-+.|..+|+..++
T Consensus       475 fLi~inde~naraLFetsv~  494 (660)
T COG5107         475 FLIRINDEENARALFETSVE  494 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHH
Confidence            67788888888888884443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.38  E-value=0.8  Score=34.15  Aligned_cols=201  Identities=18%  Similarity=0.130  Sum_probs=91.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH-
Q 043969           81 LTYNIVMCAKYRLGKLDQFHRLLDEMGRS-GFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD-  158 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-  158 (300)
                      ..+......+...+++..+...+...... ........+......+...+.+..+...+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            44444445555555555555555544431 112333444444444555555555555555555432221 111111122 


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCC--CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH
Q 043969          159 GLSRAGNLDACKYFFDEMANKGC--MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF  236 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  236 (300)
                      .+...|+++.+...+........  ......+......+...++.+.+...+..............+..+...+...+++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            45555666666666655533210  0111222222223444556666666666555542111244455555555555566


Q ss_pred             HHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          237 DEACTMMKEMESRGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      +.|...+......  .|+ ...+..+...+...+..+.+...+.+..+.
T Consensus       219 ~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         219 EEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6666666555543  222 223333333333445556665555555443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.19  E-value=1  Score=34.29  Aligned_cols=80  Identities=13%  Similarity=0.090  Sum_probs=49.3

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD---FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTL  156 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (300)
                      ...|+..+ .-.+.|++++|.+.|+.+...- +.+   ..+--.++-++.+.++++.|+...++....-......-|...
T Consensus        35 ~~LY~~g~-~~L~~gn~~~A~~~fe~l~~~~-p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Y  112 (254)
T COG4105          35 SELYNEGL-TELQKGNYEEAIKYFEALDSRH-PFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYY  112 (254)
T ss_pred             HHHHHHHH-HHHhcCCHHHHHHHHHHHHHcC-CCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHH
Confidence            34444444 4457888888888888887542 333   334445556777888888888888887775332222345455


Q ss_pred             HHHHH
Q 043969          157 MDGLS  161 (300)
Q Consensus       157 ~~~~~  161 (300)
                      |.+++
T Consensus       113 lkgLs  117 (254)
T COG4105         113 LKGLS  117 (254)
T ss_pred             HHHHH
Confidence            55544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.12  E-value=1.7  Score=36.52  Aligned_cols=97  Identities=14%  Similarity=0.208  Sum_probs=65.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQL-PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN-FLVYNTLVSNLR  266 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~  266 (300)
                      ..+..++.+.|+.++|++.+++|.+.... -+......|+.++...+.+.++..++.+..+...+.+ ...|+..+--+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            45666777899999999999999865322 2445677899999999999999999988765433323 234555443333


Q ss_pred             hcCC---------------HHHHHHHHHHHHHcC
Q 043969          267 NAGK---------------LAEAHEVIRHMVEKG  285 (300)
Q Consensus       267 ~~g~---------------~~~a~~~~~~~~~~~  285 (300)
                      ..++               -..|.+.+.+..+.+
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefN  376 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFN  376 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhC
Confidence            2222               123567777777776

The molecular function of this protein is uncertain.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.07  E-value=0.37  Score=34.86  Aligned_cols=60  Identities=17%  Similarity=0.227  Sum_probs=28.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITKGQLPN--VFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +..+...|.+.|+.++|.+.|.++.+....|.  ...+-.+|+.....+++..+...+.+..
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            44445555555555555555555544422221  2334444555555555555555544443

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

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

Probab=95.03  E-value=0.077  Score=26.71  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=16.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          258 YNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       258 ~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      +..|...|.+.|++++|.+++++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566677777777777777777743

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.99  E-value=1.4  Score=37.00  Aligned_cols=67  Identities=13%  Similarity=0.160  Sum_probs=53.2

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          218 PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-CNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       218 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      |-..+-..+..++-+.|+.++|.+.+++|.+.. ..-+......|+.++...+.+.++..++.+..+-
T Consensus       257 ~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  257 VLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             hhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            334445678888889999999999999998642 2223457788999999999999999999998654

The molecular function of this protein is uncertain.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.93  E-value=0.83  Score=33.09  Aligned_cols=60  Identities=12%  Similarity=0.132  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAP--DILTYNIVMCAKYRLGKLDQFHRLLDEM  106 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (300)
                      .+..+...|.+.|+.+.|.+.|.++.+....+  -...+-.++......+++..+...+.+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            55566666666666666666666665543222  2333444555555566666665555554

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.93  E-value=1.5  Score=34.79  Aligned_cols=22  Identities=14%  Similarity=0.385  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVFTYN  224 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~  224 (300)
                      .+.++++.+.+.|+++....|.
T Consensus       200 r~~~l~~~l~~~~~kik~~~yp  221 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMHYP  221 (297)
T ss_pred             HHHHHHHHHHHcCCcccccccc
Confidence            4555555555555555544444

>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=94.81  E-value=0.044  Score=38.09  Aligned_cols=84  Identities=11%  Similarity=0.124  Sum_probs=49.4

Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE  200 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  200 (300)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++.       .+......++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcch
Confidence            4555666677777777777777655455566677777777777666666666551       112233445555556666


Q ss_pred             HHHHHHHHHHH
Q 043969          201 LEKAQDLFDGM  211 (300)
Q Consensus       201 ~~~a~~~~~~~  211 (300)
                      +++|.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            66666655543

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.67  E-value=1.7  Score=34.40  Aligned_cols=132  Identities=11%  Similarity=0.198  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCC---CCCHhHHHHHHHHHhcCCCh
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR--LG----KLDQFHRLLDEMGRSGF---SPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~  131 (300)
                      +++...+++.|.+.|+.-+..+|-+.......  ..    ....+..+++.|++.-.   .++...+..++..  ..+++
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            56777899999999998887776654433333  22    35678899999987631   2344455555443  34444


Q ss_pred             ----HHHHHHHHHHHHcCCCCcHh--hHHHHHHHHHhCCC--HHHHHHHHHHHHhCCCCCccccHHHHHHH
Q 043969          132 ----LAALNLLNHMKEVGFDPSVL--HFTTLMDGLSRAGN--LDACKYFFDEMANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       132 ----~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~  194 (300)
                          +.+..+|+.+.+.|+..+..  ....++.......+  ..++..+++.+.+.|+++....|..+.-.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence                44677788888877765443  33333333322222  45788899999999999888887766543

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

Probab=94.63  E-value=0.1  Score=26.25  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=18.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +|..|...|.+.|++++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            36677788888888888888887744

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.62  E-value=0.5  Score=29.84  Aligned_cols=63  Identities=10%  Similarity=0.236  Sum_probs=38.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      +.-++.+-++.+......|++......+++|.+.+|+..|.++++-.+.+ ...+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            34455555666666666677777777777777777777777777766533 1113334555443

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.44  E-value=2.2  Score=34.66  Aligned_cols=66  Identities=17%  Similarity=0.128  Sum_probs=49.1

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          218 PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP---NFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       218 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ....+|..++..+.+.|.++.|...+..+...+...   .+...-.-.+.+...|+.++|...+++.++
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            355678888889999999999999888888753221   334444455667788888999998888877

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.40  E-value=0.43  Score=30.48  Aligned_cols=61  Identities=10%  Similarity=0.237  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          202 EKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      -+..+-++.+......|++......+++|.+.+++..|.++++-.+.+ ..+....|..+++
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            355566666666677777777777888888888888888877777654 2222225655554

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 ....

>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=94.39  E-value=1.3  Score=31.61  Aligned_cols=26  Identities=12%  Similarity=0.235  Sum_probs=11.2

Q ss_pred             hhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           71 MSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        71 ~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      +.+.+++|+...+..++..+.+.|++
T Consensus        20 l~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   20 LNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            33344444444444444444444443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.35  E-value=1.3  Score=31.60  Aligned_cols=135  Identities=13%  Similarity=0.093  Sum_probs=68.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhH-HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh-hHHH-
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHT-YNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVL-HFTT-  155 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-  155 (300)
                      ....|...+. ..+.+..++|+.-|..+.+.|...-+.. --.........|+...|...|+++-.....|-.. -... 
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            3444444443 2355566666666666666553321111 1112223455666666777776665543333222 1111 


Q ss_pred             -HHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          156 -LMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       156 -l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                       -.-.+...|.++......+-+-..+-+.....-..|.-+-.+.|++..|.+.|..+.+.
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence             11234456666666666665554433223333344555556677777777777766654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.21  E-value=0.53  Score=29.74  Aligned_cols=46  Identities=15%  Similarity=0.224  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKE  143 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (300)
                      ++.+-++.+....+.|++.+....+++|.+.+++..|.++++-++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4444555555555566666666666666666666666666665553

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.17  E-value=1.7  Score=32.28  Aligned_cols=224  Identities=13%  Similarity=0.043  Sum_probs=155.6

Q ss_pred             ccHHHHHHHHHHhhhcCCC-cCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043969           24 GLARKVVERFIKSKLFNFR-PFKNSYNAILHALLGIRQYKLIEWVYQQMSDE-GYAPDILTYNIVMCAKYRLGKLDQFHR  101 (300)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (300)
                      +....+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4455555555555443221 12457778888888999999999888887752 233456667777778888888999999


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHH-HHhcCCChHHHHHHHHHHHHcCC--CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 043969          102 LLDEMGRSGFSPDFHTYNILLH-VLGKGDKPLAALNLLNHMKEVGF--DPSVLHFTTLMDGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      .+.........+ ......... .+...|+++.+...+.+......  ......+......+...++.+.+...+.....
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            999887754322 222333333 78899999999999999865321  12334444445557788999999999999887


Q ss_pred             CCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          179 KGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       179 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .........+..+...+...++++.|...+......... ....+..+...+...+..+++...+......
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            632113567788888888899999999999998876322 2444555555555777899999988888875

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.13  E-value=1.7  Score=35.04  Aligned_cols=165  Identities=13%  Similarity=0.112  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhC-CCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----CCCHhH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDE-GYAPD---ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-----SPDFHT  117 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~  117 (300)
                      .|..+.+++.+.-++.+++.+-..-... |..|.   -...-++..++...+.++++++.|+...+...     .....+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            3444444444445555555554443332 22221   12223345666667777777777777643211     112346


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHc----CCCCcHhhHH-----HHHHHHHhCCCHHHHHHHHHHHHh----CCCCC-
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEV----GFDPSVLHFT-----TLMDGLSRAGNLDACKYFFDEMAN----KGCMP-  183 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-  183 (300)
                      +-.|-..|.+..|+++|.-+.....+.    ++..-..-|.     .+.-++...|.+..|.+.-++..+    .|-.+ 
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            777777777778888776665544332    2211111122     223355666776666666655432    23221 


Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          184 DVVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       184 ~~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      .......+...|...|+.+.|+.-|+..
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            1233445666777778877777666553

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.87  E-value=0.97  Score=31.25  Aligned_cols=88  Identities=11%  Similarity=0.061  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCC-----CCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHhHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGY-----APDILTYNIVMCAKYRLGK-LDQFHRLLDEMGRSGFSPDFHTYNI  120 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~  120 (300)
                      ..|.++.-....+++.....+++.+.....     ..+...|..++.+..+..- ---+..+|.-+.+.+.++++.-|..
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            567777777777777777777776643210     2366788999988866655 4456777888888778889999999


Q ss_pred             HHHHHhcCCChHHH
Q 043969          121 LLHVLGKGDKPLAA  134 (300)
Q Consensus       121 l~~~~~~~~~~~~a  134 (300)
                      ++.++.+....+..
T Consensus       121 li~~~l~g~~~~~~  134 (145)
T PF13762_consen  121 LIKAALRGYFHDSL  134 (145)
T ss_pred             HHHHHHcCCCCcch
Confidence            99988776444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.85  E-value=0.64  Score=29.71  Aligned_cols=47  Identities=15%  Similarity=0.199  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +..+-+..+....+.|++.+....+.+|.+.+++..|.++++-++..
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44455555555666667777777777777777777777777666554

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 ....

>PRK11906 transcriptional regulator; Provisional

Probab=93.71  E-value=3.6  Score=34.42  Aligned_cols=111  Identities=12%  Similarity=0.071  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHH
Q 043969           96 LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDE  175 (300)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (300)
                      ..+|.++.+...+.+ +.|......+..+..-.++.+.|..+|++....+ +....+|........-.|+.++|.+.++.
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~  397 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDK  397 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            445566666666655 4456666666665566666777777777766653 22334444444445556777777777766


Q ss_pred             HHhCCCCCccc---cHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          176 MANKGCMPDVV---CYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       176 ~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      ..+.  .|...   ..-..+..|+.. ..+.|+.+|-+-
T Consensus       398 alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  433 (458)
T PRK11906        398 SLQL--EPRRRKAVVIKECVDMYVPN-PLKNNIKLYYKE  433 (458)
T ss_pred             Hhcc--CchhhHHHHHHHHHHHHcCC-chhhhHHHHhhc
Confidence            5443  23221   122223344333 456666665543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.59  E-value=0.11  Score=25.83  Aligned_cols=21  Identities=14%  Similarity=0.191  Sum_probs=10.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a   99 (300)
                      +..+|+.+...+...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            444444454455555554444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.33  E-value=4.2  Score=33.93  Aligned_cols=200  Identities=14%  Similarity=0.137  Sum_probs=110.3

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHH-------HHHhc----CCChHHHHHHHHHHHHcCCCC
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILL-------HVLGK----GDKPLAALNLLNHMKEVGFDP  148 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-------~~~~~----~~~~~~a~~~~~~~~~~~~~~  148 (300)
                      ..+|..++....+.++...|.+.+.-+...  .|+...-..++       +..+.    ..+...-+.+|+......+..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr  375 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR  375 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH
Confidence            456777888888888888888888777554  34433222221       12221    112223344555554433221


Q ss_pred             cHhhHHHHH---H-HHHhCCCHHHHHHHHHHHHhCCCCCccccHHHH----HHHHHh---cCCHHHHHHHHHHHHHCCCC
Q 043969          149 SVLHFTTLM---D-GLSRAGNLDACKYFFDEMANKGCMPDVVCYTVM----ITSYIA---AGELEKAQDLFDGMITKGQL  217 (300)
Q Consensus       149 ~~~~~~~l~---~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----i~~~~~---~~~~~~a~~~~~~~~~~~~~  217 (300)
                      .. .-.-++   . .+...+.-++|.++++.+.+-. .-|...-|.+    =..|.+   ...+.+-..+-+-+.+.|+.
T Consensus       376 qQ-Lvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~  453 (549)
T PF07079_consen  376 QQ-LVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLT  453 (549)
T ss_pred             HH-HHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC
Confidence            11 111122   1 2333444778888888877641 1122222222    123332   23455666666666666776


Q ss_pred             CCH----HHHHHHHHH--HhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          218 PNV----FTYNSMIRG--FCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       218 p~~----~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |-.    ..-|.+..+  +...|++.++.-.-.-+.+  +.|++.+|..+.-++....++++|+.++.++.-+.
T Consensus       454 ~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~n~  525 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPPNE  525 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCCch
Confidence            533    333444332  4567888887654444433  67888888888888888888888888888877643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK11906 transcriptional regulator; Provisional

Probab=93.30  E-value=4.3  Score=34.02  Aligned_cols=110  Identities=11%  Similarity=0.108  Sum_probs=73.2

Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc-cccHHHHHHHHHhcCCHHHHHHHH
Q 043969          130 KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD-VVCYTVMITSYIAAGELEKAQDLF  208 (300)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~  208 (300)
                      +..+|.++-+...+.+ +.|......+..+....++.+.|...|++....  .|| ..+|........-.|+.++|.+.+
T Consensus       319 ~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i  395 (458)
T PRK11906        319 AAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICI  395 (458)
T ss_pred             HHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4556777777777764 446666666766677778899999999988876  344 345555555566789999999999


Q ss_pred             HHHHHCCCCCCH---HHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          209 DGMITKGQLPNV---FTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       209 ~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      ++..+.  .|..   ...-..+..|+.. ..+.|+.++-+
T Consensus       396 ~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        396 DKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHhcc--CchhhHHHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            986664  2332   2333334466654 46777777654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.12  E-value=2  Score=29.65  Aligned_cols=68  Identities=10%  Similarity=0.079  Sum_probs=33.0

Q ss_pred             cCCChHHHHHHHHHHHHcCCCC---cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGFDP---SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY  195 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (300)
                      +.|++++|.+.|+.+... .+.   ....--.++.+|.+.++++.|...++..++.+.......|...+.++
T Consensus        22 ~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            445556666655555554 111   22333445555666666666666666555543222233344444443

>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=93.12  E-value=1.6  Score=31.97  Aligned_cols=79  Identities=8%  Similarity=-0.079  Sum_probs=50.4

Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC---CCCCccccHHHHHHHHHhcCCH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK---GCMPDVVCYTVMITSYIAAGEL  201 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~  201 (300)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++..++....+.   +-.+|+..+..|+..+.+.|++
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            444454 557777777766655445555445544444 56777777777766543   2256677788888888888887


Q ss_pred             HHHH
Q 043969          202 EKAQ  205 (300)
Q Consensus       202 ~~a~  205 (300)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            7764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.06  E-value=0.34  Score=24.93  Aligned_cols=28  Identities=29%  Similarity=0.457  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          256 LVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       256 ~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      .+++.+...|...|++++|++++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3556666666666777777766666654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.05  E-value=0.15  Score=25.33  Aligned_cols=20  Identities=25%  Similarity=0.489  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHhccCCHHHH
Q 043969          220 VFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a  239 (300)
                      ...|+.+...|...|++++|
T Consensus        13 ~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHhh
Confidence            33344444444444444433

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=92.92  E-value=2  Score=31.51  Aligned_cols=72  Identities=11%  Similarity=0.033  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHHHH
Q 043969          202 EKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR---GCNPNFLVYNTLVSNLRNAGKLAEA  274 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a  274 (300)
                      +.|...|-.+...+.--++.....+...|. ..|.+++..++.+..+.   +-.+|+..+.+|+..+.+.|+.+.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            344444444444443334444444443333 34555555555555442   2244555566666666666665554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.67  E-value=9.1  Score=36.08  Aligned_cols=43  Identities=9%  Similarity=0.197  Sum_probs=22.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          195 YIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      +.....+++|.-.|...-+         ....+.+|...|+|++|+.+..++
T Consensus       949 L~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql  991 (1265)
T KOG1920|consen  949 LREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQL  991 (1265)
T ss_pred             HHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhh
Confidence            3345555555555554322         123455666666666666655544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.58  E-value=4.1  Score=31.85  Aligned_cols=144  Identities=8%  Similarity=0.031  Sum_probs=89.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhh-CCCCCCHhhHHHHHHHHHh-cC-CHHHHHHHHHHHHhC-CCCCCHhHHHHHHH
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSD-EGYAPDILTYNIVMCAKYR-LG-KLDQFHRLLDEMGRS-GFSPDFHTYNILLH  123 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  123 (300)
                      |..++.   +.....+|+.+|+..-. ..+--|..+...+++.... .+ ....-.++.+-+... +-.++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            555543   33456677777774322 2344477777777766655 22 222233333333322 23567777888888


Q ss_pred             HHhcCCChHHHHHHHHHHHHc-CCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHH-----HhCCCCCccccHHHHHHH
Q 043969          124 VLGKGDKPLAALNLLNHMKEV-GFDPSVLHFTTLMDGLSRAGNLDACKYFFDEM-----ANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~~~~~~li~~  194 (300)
                      .++..+++.+-.++++..... +...|...|..+|......|+..-...+.++-     .+.++..+...-..+-..
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~L  287 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSEL  287 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHH
Confidence            888888888888888877655 55667788888888888888888777777653     334555454444444333

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.50  E-value=2.9  Score=29.95  Aligned_cols=135  Identities=14%  Similarity=0.197  Sum_probs=75.2

Q ss_pred             CHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh-hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccc-cHHHH
Q 043969          114 DFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVL-HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVV-CYTVM  191 (300)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  191 (300)
                      +...|...++. .+.+..++|+.-|.++.+.|...-+. ..-.........|+...|...|+++-.....|-.. -...|
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            34445444443 34566777777777777765432221 11122334566777777777777776553333322 11222


Q ss_pred             HH--HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          192 IT--SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       192 i~--~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      =.  .+...|.++....-.+.+...+.+.....-..|.-+-.+.|++.+|...|..+...
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            12  23456777777776666655544334444455666666777777777777776653

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.37  E-value=6.9  Score=34.00  Aligned_cols=98  Identities=18%  Similarity=0.180  Sum_probs=52.3

Q ss_pred             HhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 043969          161 SRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  240 (300)
                      .+.|+++.|.++..+..      +..-|..|..+..+.+++..|.+.|.+..+         |..|+-.+...|+.+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            44566666665554432      444566666666666666666666665433         334455555555555444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043969          241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIR  279 (300)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  279 (300)
                      .+-....+.|.      .|....+|...|+++++.+++.
T Consensus       713 ~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  713 VLASLAKKQGK------NNLAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHH
Confidence            44444444432      1223334555566666555543

>PRK09687 putative lyase; Provisional

Probab=92.32  E-value=4.6  Score=31.83  Aligned_cols=220  Identities=11%  Similarity=0.034  Sum_probs=133.4

Q ss_pred             CcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH----HHHHHHHHHHHhCCCCCCHhH
Q 043969           42 RPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL----DQFHRLLDEMGRSGFSPDFHT  117 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~  117 (300)
                      .+|.......+.++...|.. .+...+..+.+.   +|...=...+.++.+.|+.    +++...+..+...  .++..+
T Consensus        34 d~d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~V  107 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACV  107 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHH
Confidence            45555666677777777653 333444444433   3555555566677777763    4677777766433  467676


Q ss_pred             HHHHHHHHhcCCCh-----HHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHH
Q 043969          118 YNILLHVLGKGDKP-----LAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMI  192 (300)
Q Consensus       118 ~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (300)
                      -...+.++...+..     ..+...+.....   .++..+-...+.++.+.++. .+...+-.+.+.   ++...-...+
T Consensus       108 R~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~d---~~~~VR~~A~  180 (280)
T PRK09687        108 RASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINLLKD---PNGDVRNWAA  180 (280)
T ss_pred             HHHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHHhcC---CCHHHHHHHH
Confidence            66666666655422     223333333333   34666777778888888874 455555555543   3444555555


Q ss_pred             HHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 043969          193 TSYIAAG-ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKL  271 (300)
Q Consensus       193 ~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  271 (300)
                      .++++.+ +.+.+...+..+...   ++..+-...+.++.+.|+. .|...+-+..+.+   +  .....+.++...|..
T Consensus       181 ~aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        181 FALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH
Confidence            6666543 244666666666644   4667777788888888884 5555555555432   2  234677888888885


Q ss_pred             HHHHHHHHHHHHc
Q 043969          272 AEAHEVIRHMVEK  284 (300)
Q Consensus       272 ~~a~~~~~~~~~~  284 (300)
                       +|...+..+.+.
T Consensus       252 -~a~p~L~~l~~~  263 (280)
T PRK09687        252 -TLLPVLDTLLYK  263 (280)
T ss_pred             -hHHHHHHHHHhh
Confidence             688888888763

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

Probab=92.32  E-value=0.57  Score=22.87  Aligned_cols=27  Identities=26%  Similarity=0.303  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          257 VYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       257 ~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +|..+..+|...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            445555556666666666666665554

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 ....

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=92.29  E-value=0.8  Score=24.28  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=11.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          262 VSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       262 i~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..+|...|+.+.|.++++++.+.|
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHcC
Confidence            344444444444444444444444

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.07  E-value=0.51  Score=24.24  Aligned_cols=29  Identities=17%  Similarity=0.415  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          220 VFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ..+++.+...|...|++++|..++++...
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            35677788888888888888888887764

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

Probab=92.00  E-value=0.59  Score=22.81  Aligned_cols=27  Identities=15%  Similarity=0.330  Sum_probs=15.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +|..+..+|...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455555566666666666666665554

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 ....

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.93  E-value=3.7  Score=29.98  Aligned_cols=21  Identities=24%  Similarity=0.238  Sum_probs=10.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 043969          264 NLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       264 ~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .+...|+-++|+.-|++.++.
T Consensus       168 ill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         168 ILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HHHHcCchHHHHHHHHHHHHc
Confidence            444445555555555544444

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.90  E-value=5  Score=31.37  Aligned_cols=146  Identities=10%  Similarity=0.074  Sum_probs=91.9

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHH-cCCCCcHhhHHHHHHHHHh-CC-CHHHHHHHHHHHH-hCCCCCccccHHHHHH
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKE-VGFDPSVLHFTTLMDGLSR-AG-NLDACKYFFDEMA-NKGCMPDVVCYTVMIT  193 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~-~~~~~~~~~~~~~li~  193 (300)
                      |..|+.   +.....+|+++|+.... ..+-.|..+...+++.... .+ ....-.++.+-+. ..+..++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            555553   23445667777774322 2344566666666666554 22 2222223333332 2245677788888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH-----HHCCCCCCHHHHHHHHHHHH
Q 043969          194 SYIAAGELEKAQDLFDGMITK-GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM-----ESRGCNPNFLVYNTLVSNLR  266 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~~~~~~li~~~~  266 (300)
                      .++..+++.+-.+++...... +..-|...|..+|......|+..-...+.++=     ...|+..+...-.++-..+.
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            999999999999988887655 55567888999999999999887777766542     23466666666665555443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.82  E-value=5.2  Score=31.35  Aligned_cols=183  Identities=14%  Similarity=0.098  Sum_probs=111.5

Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc------CC-----ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGK------GD-----KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~------~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      +.-.+..++..+...+....++...+.++..      .|     -..+|+++|.-+.++.-  ...+-..++.++-...+
T Consensus       104 ekLnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkg--k~v~~~~~ie~lwpe~D  181 (361)
T COG3947         104 EKLNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKG--KEVTSWEAIEALWPEKD  181 (361)
T ss_pred             HHHHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcC--CcccHhHHHHHHccccc
Confidence            3444444444443334445566666666652      11     13568888888877532  23334556666666666


Q ss_pred             HHHHHHHHHHHH-------hC-------------------CCCCccccHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCC
Q 043969          166 LDACKYFFDEMA-------NK-------------------GCMPDVVCYTVMITSYIA-AGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       166 ~~~a~~~~~~~~-------~~-------------------~~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      ..+|...+....       ..                   ++.-|..-|...+...-. .-.++++.++....... .-|
T Consensus       182 ~kka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e~es~~rqi~~inltide~kelv~~ykgd-yl~  260 (361)
T COG3947         182 EKKASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYDVQEYESLARQIEAINLTIDELKELVGQYKGD-YLP  260 (361)
T ss_pred             hhhHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCccccHHHHHHHhhhhhccccCHHHHHHHHHHhcCC-cCC
Confidence            666666554431       10                   122244445555544332 23466666666654322 111


Q ss_pred             C-----------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          219 N-----------------VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       219 ~-----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      +                 ..+++.....|...|.+.+|.++.++.+..+ +.+...+..+++.+...|+--.|.+-++++
T Consensus       261 e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         261 EADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             ccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            1                 2245666778999999999999999998863 557788889999999999988888877777


Q ss_pred             HH
Q 043969          282 VE  283 (300)
Q Consensus       282 ~~  283 (300)
                      .+
T Consensus       340 a~  341 (361)
T COG3947         340 AE  341 (361)
T ss_pred             HH
Confidence            54

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

Probab=91.82  E-value=0.7  Score=22.41  Aligned_cols=28  Identities=21%  Similarity=0.210  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          257 VYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       257 ~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .+..+..++...|++++|.+.+++.++.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4555666777777777777777776653

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 ....

>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=91.80  E-value=3.4  Score=29.18  Aligned_cols=13  Identities=31%  Similarity=0.148  Sum_probs=4.9

Q ss_pred             CCChHHHHHHHHH
Q 043969          128 GDKPLAALNLLNH  140 (300)
Q Consensus       128 ~~~~~~a~~~~~~  140 (300)
                      .|++.+|..+|++
T Consensus        57 r~~w~dA~rlLr~   69 (160)
T PF09613_consen   57 RGDWDDALRLLRE   69 (160)
T ss_pred             hCCHHHHHHHHHH
Confidence            3333333333333

>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=91.61  E-value=3.6  Score=29.07  Aligned_cols=52  Identities=17%  Similarity=0.154  Sum_probs=25.3

Q ss_pred             HccCcHHHHHHHHHHhhhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           56 LGIRQYKLIEWVYQQMSDEGYA-PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      ...++.+++..++..+....+. |...++..  ..+...|++.+|.++|+.+...
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhcc
Confidence            4445566666666555544211 11222222  2345566666666666665444

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.40  E-value=4.9  Score=31.23  Aligned_cols=87  Identities=9%  Similarity=0.057  Sum_probs=43.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh----
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR----  162 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  162 (300)
                      |.+++..+++.+++...-+.-+.--+..+.+...-|-.|.+.+++..+.++-..-....-.-+...|.++++.|..    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            4566666666666554443322211223344455555566666666666665555443222223335555444433    


Q ss_pred             -CCCHHHHHHHH
Q 043969          163 -AGNLDACKYFF  173 (300)
Q Consensus       163 -~~~~~~a~~~~  173 (300)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             46666665554

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

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.28  E-value=4.9  Score=30.05  Aligned_cols=170  Identities=15%  Similarity=0.148  Sum_probs=95.8

Q ss_pred             HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHH
Q 043969          115 FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  194 (300)
                      +.+||-+.--+...|+++.|.+.|+...+....-+-...|.-|. +.-.|+++.|.+-+...-+..  |+ ..|..+--.
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ~D--~~-DPfR~LWLY  174 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQDD--PN-DPFRSLWLY  174 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHhcC--CC-ChHHHHHHH
Confidence            56788887778888999999999988887643333334444343 334577777776665554432  11 123333222


Q ss_pred             H-HhcCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHH
Q 043969          195 Y-IAAGELEKAQDLFD-GMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN-------FLVYNTLVSNL  265 (300)
Q Consensus       195 ~-~~~~~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~li~~~  265 (300)
                      . -+.-++.+|..-+. +...    .|..-|...|-.|.- |+.. ...+++++... -.-+       ..||..+..-+
T Consensus       175 l~E~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~-a~~n~~~Ae~LTEtyFYL~K~~  247 (297)
T COG4785         175 LNEQKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYL-GKIS-EETLMERLKAD-ATDNTSLAEHLTETYFYLGKYY  247 (297)
T ss_pred             HHHhhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhh-ccchHHHHHHHHHHHHHHHHHH
Confidence            2 22345666654443 3322    244455444433321 2221 12233333332 1111       35677777888


Q ss_pred             HhcCCHHHHHHHHHHHHHcChHHHHHHHhh
Q 043969          266 RNAGKLAEAHEVIRHMVEKGKYIHLVSKFK  295 (300)
Q Consensus       266 ~~~g~~~~a~~~~~~~~~~~~~~~l~~~~~  295 (300)
                      ...|+.++|..+|+-.+.+++|+-+--.|+
T Consensus       248 l~~G~~~~A~~LfKLaiannVynfVE~RyA  277 (297)
T COG4785         248 LSLGDLDEATALFKLAVANNVYNFVEHRYA  277 (297)
T ss_pred             hccccHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            888999999999999998887765544444

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

Probab=91.27  E-value=0.77  Score=22.25  Aligned_cols=27  Identities=11%  Similarity=0.305  Sum_probs=15.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .+..+...+...|++++|.+.+++..+
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            344555556666666666666665554

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.17  E-value=9.6  Score=33.20  Aligned_cols=150  Identities=13%  Similarity=0.058  Sum_probs=101.0

Q ss_pred             ccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043969           22 EVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHR  101 (300)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (300)
                      -.++++.|..++....       ...-+.+.+.+.+.|-.++|+++         .+|...   -.....+.|+++.|.+
T Consensus       598 mrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~  658 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFD  658 (794)
T ss_pred             hhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHH
Confidence            3466666666544332       22556677777777777777644         223322   1234457889988887


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 043969          102 LLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC  181 (300)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (300)
                      +..+.      .+..-|..|.++..+.+++..|.+.|.+...         |..|+-.+...|+-+....+-....+.|.
T Consensus       659 la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~  723 (794)
T KOG0276|consen  659 LAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK  723 (794)
T ss_pred             HHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc
Confidence            76654      3567799999999999999999988877654         45666677778887777777677666653


Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          182 MPDVVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       182 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                            .|....+|...|+++++.+++.+-
T Consensus       724 ------~N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  724 ------NNLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ------cchHHHHHHHcCCHHHHHHHHHhc
Confidence                  233445667789999998887654

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

Probab=91.13  E-value=0.91  Score=22.06  Aligned_cols=27  Identities=26%  Similarity=0.314  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          257 VYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       257 ~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +|..+...|...|++++|.+.|++.++
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            455666677777777777777777654

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=90.66  E-value=9.1  Score=32.07  Aligned_cols=88  Identities=14%  Similarity=0.100  Sum_probs=50.5

Q ss_pred             HHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHH----HHHhc---cCCHHHHHHHHHHHHHCCCCCCH----HHHHH
Q 043969          193 TSYIAAGE-LEKAQDLFDGMITKGQLPNVFTYNSMI----RGFCM---AGKFDEACTMMKEMESRGCNPNF----LVYNT  260 (300)
Q Consensus       193 ~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~~~~l~----~~~~~---~~~~~~a~~~~~~~~~~~~~~~~----~~~~~  260 (300)
                      .-+-+.|. -++|+.+++.+.+-. .-|...-|.+.    .+|.+   ...+.+-..+-+-+.+.|++|-.    ..-+.
T Consensus       387 k~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~  465 (549)
T PF07079_consen  387 KHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANF  465 (549)
T ss_pred             HHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHH
Confidence            33555665 888999999888752 22443333222    23332   23455666666666678887754    34445


Q ss_pred             HHHH--HHhcCCHHHHHHHHHHH
Q 043969          261 LVSN--LRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       261 li~~--~~~~g~~~~a~~~~~~~  281 (300)
                      |.++  +...|++.++.-+-.=+
T Consensus       466 LaDAEyLysqgey~kc~~ys~WL  488 (549)
T PF07079_consen  466 LADAEYLYSQGEYHKCYLYSSWL  488 (549)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHH
Confidence            5443  46789998876544333

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.43  E-value=9.9  Score=32.14  Aligned_cols=126  Identities=10%  Similarity=0.044  Sum_probs=82.7

Q ss_pred             HHHHHHccCcHHHHHH-HHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC
Q 043969           51 ILHALLGIRQYKLIEW-VYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD  129 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (300)
                      -|.-....|+...|-+ ++..+....-.|+....  ....+...|+++.+.+.+....+. +.....+...+++...+.|
T Consensus       295 si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~  371 (831)
T PRK15180        295 SITKQLADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLA  371 (831)
T ss_pred             HHHHHhhccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchh
Confidence            3444456677766554 44444444334444333  334466789999999988776543 2445677888999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 043969          130 KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      +++.|..+-+.|....++ +..............|-++++...|+++...+
T Consensus       372 r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        372 RWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             hHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            999999999888876554 33333333334455677888888888886553

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=90.35  E-value=5.3  Score=31.04  Aligned_cols=92  Identities=7%  Similarity=-0.053  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      ....-|.+++..+++.+++...-+..+..-+..+.....-|-.|.+.++...+.++-..-....-.-+...|..++..|.
T Consensus        85 LcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyL  164 (309)
T PF07163_consen   85 LCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYL  164 (309)
T ss_pred             hhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHH
Confidence            34556788889999998887776655542223344455555668888888888877766554422223344777666554


Q ss_pred             -----cCCChHHHHHHH
Q 043969          127 -----KGDKPLAALNLL  138 (300)
Q Consensus       127 -----~~~~~~~a~~~~  138 (300)
                           =.|.+++|+++.
T Consensus       165 l~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  165 LHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHhccccHHHHHHHH
Confidence                 468889988877

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

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.21  E-value=0.91  Score=24.08  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=13.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHC
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      +..+|...|+.+.|.+++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            445556666666666666655543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>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=90.20  E-value=0.1  Score=36.23  Aligned_cols=46  Identities=4%  Similarity=-0.046  Sum_probs=17.3

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043969           55 LLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      +.+.+.......+++.+...+...+....+.++..|++.++.+...
T Consensus        17 ~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~   62 (143)
T PF00637_consen   17 FEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLL   62 (143)
T ss_dssp             CTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHH
T ss_pred             HHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHH
Confidence            3333344444444444443332223344444444444443333333

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.18  E-value=4.2  Score=30.37  Aligned_cols=77  Identities=9%  Similarity=-0.005  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHhHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG--FSPDFHTYNILLHV  124 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~  124 (300)
                      +.+..++.+.+.++..+++...++-++..+. |..+-..++..++-.|++++|..-++-.-...  ..+-...|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4456667777788888888887777766433 56666677788888888888877666654432  12234455555543

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=89.83  E-value=4.2  Score=27.30  Aligned_cols=59  Identities=14%  Similarity=0.317  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLV  262 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  262 (300)
                      +..+-+..+..-.+.|++......+++|.+.+|+..|.++|+-.+.+ ..+....|..++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHH
Confidence            44455555555667777777777777777777777777777776654 222333454444

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.55  E-value=13  Score=33.15  Aligned_cols=90  Identities=16%  Similarity=0.062  Sum_probs=40.7

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHhHHHHHHHHHhc--
Q 043969           51 ILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG-FSPDFHTYNILLHVLGK--  127 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~--  127 (300)
                      ....+.-.|+++.|.+.+-.  ..+...+..++.+.+.-+.-.+-.+...   ..+.... -.|...-+..||..|.+  
T Consensus       264 Yf~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F  338 (613)
T PF04097_consen  264 YFQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSF  338 (613)
T ss_dssp             HHHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTT
T ss_pred             HHHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHH
Confidence            34555667889998888766  2233445556555554433222111111   2221111 01122456777777765  


Q ss_pred             -CCChHHHHHHHHHHHHcC
Q 043969          128 -GDKPLAALNLLNHMKEVG  145 (300)
Q Consensus       128 -~~~~~~a~~~~~~~~~~~  145 (300)
                       ..++..|.+++--+....
T Consensus       339 ~~td~~~Al~Y~~li~~~~  357 (613)
T PF04097_consen  339 EITDPREALQYLYLICLFK  357 (613)
T ss_dssp             TTT-HHHHHHHHHGGGGS-
T ss_pred             hccCHHHHHHHHHHHHHcC
Confidence             567888888888776643

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.54  E-value=0.84  Score=21.88  Aligned_cols=25  Identities=20%  Similarity=0.344  Sum_probs=15.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          260 TLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       260 ~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .+..++.+.|++++|.+.|+++++.
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3445566667777777777766653

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.51  E-value=6.8  Score=28.91  Aligned_cols=96  Identities=15%  Similarity=0.181  Sum_probs=67.9

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCCCc-----cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCMPD-----VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC  231 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (300)
                      .+-+.+.|++++|..-|.+.... +++.     ...|..-..++.+.+.++.|+.--.+.++.+.. .......-..+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHH
Confidence            34567889999999999988876 2222     234555566778888899998888887776432 3344444566788


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHH
Q 043969          232 MAGKFDEACTMMKEMESRGCNPNFL  256 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~  256 (300)
                      +..++++|++=+..+.+.  .|...
T Consensus       180 k~ek~eealeDyKki~E~--dPs~~  202 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILES--DPSRR  202 (271)
T ss_pred             hhhhHHHHHHHHHHHHHh--CcchH
Confidence            888899999988888875  44443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.33  E-value=4  Score=30.46  Aligned_cols=76  Identities=4%  Similarity=-0.118  Sum_probs=48.0

Q ss_pred             HHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCC--CCCCHhhHHHHHHH
Q 043969           13 FNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEG--YAPDILTYNIVMCA   89 (300)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~   89 (300)
                      .+.-++.+.+.+...+++...+.-.+.. +.+...-..++..++-.|++++|..-++-.-+..  ..+....|..++.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4445566667777888887777655442 3445566778888888888888876666554432  23344556666544

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=89.19  E-value=1.8  Score=25.04  Aligned_cols=47  Identities=21%  Similarity=0.391  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          236 FDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .+...++++.+...  +.|..-.-.+|.+|...|++++|.++++++.+.
T Consensus         6 ~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~~   52 (62)
T PF14689_consen    6 LEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSKD   52 (62)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            34444444444432  234444556677777777777777777776654

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=89.05  E-value=0.76  Score=20.98  Aligned_cols=20  Identities=30%  Similarity=0.436  Sum_probs=11.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHH
Q 043969          260 TLVSNLRNAGKLAEAHEVIR  279 (300)
Q Consensus       260 ~li~~~~~~g~~~~a~~~~~  279 (300)
                      .+..++...|++++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            44455556666666665543

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PHA02875 ankyrin repeat protein; Provisional

Probab=88.90  E-value=13  Score=31.23  Aligned_cols=214  Identities=14%  Similarity=0.152  Sum_probs=104.7

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCHHH--HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh--hHHHHHHHHHh
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFKNS--YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDIL--TYNIVMCAKYR   92 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~   92 (300)
                      +....+.|+.+-+..+++    .|..|+...  ..+.++.++..|+.+-+    +.+.+.|..|+..  .....+...+.
T Consensus         6 L~~A~~~g~~~iv~~Ll~----~g~~~n~~~~~g~tpL~~A~~~~~~~~v----~~Ll~~ga~~~~~~~~~~t~L~~A~~   77 (413)
T PHA02875          6 LCDAILFGELDIARRLLD----IGINPNFEIYDGISPIKLAMKFRDSEAI----KLLMKHGAIPDVKYPDIESELHDAVE   77 (413)
T ss_pred             HHHHHHhCCHHHHHHHHH----CCCCCCccCCCCCCHHHHHHHcCCHHHH----HHHHhCCCCccccCCCcccHHHHHHH
Confidence            334455677765555554    455555432  33455566677776544    4445566555432  12234455667


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhh--HHHHHHHHHhCCCHHHHH
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLH--FTTLMDGLSRAGNLDACK  170 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~  170 (300)
                      .|+.+.+..+++.-....-..+..-. +.+...+..|+.    ++++.+.+.|..|+...  -.+.+...+..|+.+.+.
T Consensus        78 ~g~~~~v~~Ll~~~~~~~~~~~~~g~-tpL~~A~~~~~~----~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~  152 (413)
T PHA02875         78 EGDVKAVEELLDLGKFADDVFYKDGM-TPLHLATILKKL----DIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIE  152 (413)
T ss_pred             CCCHHHHHHHHHcCCcccccccCCCC-CHHHHHHHhCCH----HHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHH
Confidence            88887765555432111001111112 233333445655    34555556665554321  123344455677776555


Q ss_pred             HHHHHHHhCCCCCc---cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH---HHHHHHHhccCCHHHHHHHHH
Q 043969          171 YFFDEMANKGCMPD---VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTY---NSMIRGFCMAGKFDEACTMMK  244 (300)
Q Consensus       171 ~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~  244 (300)
                      .++    +.|..++   ..-.+.+. ..+..|+.+-+    +.+.+.|..|+...-   ...+...+..|+.+    +.+
T Consensus       153 ~Ll----~~g~~~~~~d~~g~TpL~-~A~~~g~~eiv----~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv~  219 (413)
T PHA02875        153 LLI----DHKACLDIEDCCGCTPLI-IAMAKGDIAIC----KMLLDSGANIDYFGKNGCVAALCYAIENNKID----IVR  219 (413)
T ss_pred             HHH----hcCCCCCCCCCCCCCHHH-HHHHcCCHHHH----HHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HHH
Confidence            444    3443332   22333333 34556765544    444556666554321   23444344556654    445


Q ss_pred             HHHHCCCCCCHH
Q 043969          245 EMESRGCNPNFL  256 (300)
Q Consensus       245 ~~~~~~~~~~~~  256 (300)
                      -+.+.|..++..
T Consensus       220 ~Ll~~gad~n~~  231 (413)
T PHA02875        220 LFIKRGADCNIM  231 (413)
T ss_pred             HHHHCCcCcchH
Confidence            556777777653

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.88  E-value=0.98  Score=21.63  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=14.6

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          225 SMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .+..++.+.|++++|.+.|+++.+.
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3445555566666666666666553

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=88.81  E-value=4.3  Score=27.26  Aligned_cols=59  Identities=10%  Similarity=0.142  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHH
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLM  157 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (300)
                      +..+.+..+..-.+.|++.+....++++.+.+|+..|.++|+-++.. ..+....|..++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHH
Confidence            34555666666777888888888888888888888888888887765 233333455444

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.72  E-value=16  Score=32.13  Aligned_cols=250  Identities=13%  Similarity=0.049  Sum_probs=147.7

Q ss_pred             hhccccHHHHHHHHHHhhh-------cCCCcCHHHHHHHHHHHHccC-----cHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969           20 CGEVGLARKVVERFIKSKL-------FNFRPFKNSYNAILHALLGIR-----QYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      ++...|.+.|+.++.....       .+   .....+-+..+|.+..     +.+.|..++....+.|.+ +....-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHH
Confidence            4456788999999988755       33   2224566777776643     667899999998888743 444433333


Q ss_pred             HHHHh-cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH--HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC
Q 043969           88 CAKYR-LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV--LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG  164 (300)
Q Consensus        88 ~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (300)
                      ..... ..+...|.++|...-+.|.. ...-+..++..  .....+...|..++.+..+.| .|....-...+..+.. +
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~  411 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-G  411 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-c
Confidence            22222 24678999999999888832 22222222221  123457888999999999887 3332223333444444 7


Q ss_pred             CHHHHHHHHHHHHhCCCCCccccHHHHHHH-H---Hh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc---
Q 043969          165 NLDACKYFFDEMANKGCMPDVVCYTVMITS-Y---IA----AGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA---  233 (300)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~---~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---  233 (300)
                      .++.+...+..+.+.|.. ...+-...+.. .   ..    ..+...+..++......|   +......+-..|..-   
T Consensus       412 ~~~~~~~~~~~~a~~g~~-~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~  487 (552)
T KOG1550|consen  412 RYDTALALYLYLAELGYE-VAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAAAQG---NADAILKLGDYYYYGLGT  487 (552)
T ss_pred             cccHHHHHHHHHHHhhhh-HHhhHHHHHHHhccccccccccccchhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCC
Confidence            777777777776665532 22222222111 1   11    225666777777776665   445555555555443   


Q ss_pred             -CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----HhcCCHHHHHHHHHHHHHcC
Q 043969          234 -GKFDEACTMMKEMESRGCNPNFLVYNTLVSNL----RNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       234 -~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~g~~~~a~~~~~~~~~~~  285 (300)
                       .+++.|...+......+    ......+-..+    .-.. +..|.+++++..+.+
T Consensus       488 ~~d~~~a~~~y~~a~~~~----~~~~~nlg~~~e~g~g~~~-~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  488 GRDPEKAAAQYARASEQG----AQALFNLGYMHEHGEGIKV-LHLAKRYYDQASEED  539 (552)
T ss_pred             CCChHHHHHHHHHHHHhh----hHHHhhhhhHHhcCcCcch-hHHHHHHHHHHHhcC
Confidence             35788888888777664    22222232222    1223 789999999988876

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=88.37  E-value=7.7  Score=28.04  Aligned_cols=109  Identities=13%  Similarity=0.061  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHcc---Cc-------HHHHHHHHHHhhhCCCCCC-HhhHHHHHHHHHhcC
Q 043969           26 ARKVVERFIKSKLFNFRPFKNSYNAILHALLGI---RQ-------YKLIEWVYQQMSDEGYAPD-ILTYNIVMCAKYRLG   94 (300)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~-------~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~   94 (300)
                      ++.|.+..+..-..+ +.|...++....++...   .+       +++|..-|++.+..  .|+ ..++..+..++...+
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I--~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKI--NPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHHHH
Confidence            455555555533333 45555555555554433   33       23344444444444  444 355655665554432


Q ss_pred             ----C-------HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 043969           95 ----K-------LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG  145 (300)
Q Consensus        95 ----~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (300)
                          +       +++|...|++....  .|+...|..-+....      +|-.+..++.+.+
T Consensus        84 ~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~------kap~lh~e~~~~~  137 (186)
T PF06552_consen   84 FLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA------KAPELHMEIHKQG  137 (186)
T ss_dssp             HH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH------THHHHHHHHHHSS
T ss_pred             hhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH------hhHHHHHHHHHHH
Confidence                2       45566666666655  688888888877763      3556666665554

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=88.35  E-value=15  Score=31.21  Aligned_cols=120  Identities=10%  Similarity=0.031  Sum_probs=77.5

Q ss_pred             HhcCCHHHHHH-HHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHH
Q 043969           91 YRLGKLDQFHR-LLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDAC  169 (300)
Q Consensus        91 ~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (300)
                      ...|++-.|-+ ++..++..  +-++.........+...|+++.+.+.+...... +.....+...+++...+.|+++.|
T Consensus       300 ~~~gd~~aas~~~~~~lr~~--~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQ--QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhC--CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHH
Confidence            34566655544 44444443  223333333344566788999998888776654 334556778888888899999999


Q ss_pred             HHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          170 KYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      ...-..|....+. +...........-..|-++++...|+++...
T Consensus       377 ~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        377 LSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            9988888776554 3333333333345567788898888887654

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.09  E-value=9.8  Score=28.89  Aligned_cols=17  Identities=12%  Similarity=0.028  Sum_probs=9.8

Q ss_pred             HHhcCCHHHHHHHHHHH
Q 043969           90 KYRLGKLDQFHRLLDEM  106 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~  106 (300)
                      +.-.+.+++|.+++.+.
T Consensus        24 fgg~~k~eeAadl~~~A   40 (288)
T KOG1586|consen   24 FGGSNKYEEAAELYERA   40 (288)
T ss_pred             cCCCcchHHHHHHHHHH
Confidence            33445666666666554

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.09  E-value=20  Score=32.38  Aligned_cols=56  Identities=14%  Similarity=-0.044  Sum_probs=38.3

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCc---CHHHHHHHHHHHHccCcHHHHHHHHHHhhhC
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRP---FKNSYNAILHALLGIRQYKLIEWVYQQMSDE   74 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (300)
                      ++.+.+.+.+++|++..+.....  .|   ........|..+...|++++|-...-.|...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn  421 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN  421 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc
Confidence            34456677888888888775543  33   2336677888888888888888777666543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=88.05  E-value=16  Score=31.29  Aligned_cols=165  Identities=10%  Similarity=0.083  Sum_probs=97.3

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      .|...+-+++..++....+.-+..+..++...|  -+...|..++..|... ..+.-..+|+++.+..+. |...-..+.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            455666677777777777777777777776654  4445677777777776 456666777777766443 333333333


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-----CHhHHHHHHHHHhcCCChHHHHHHHHHHHHc-CCCCcHhhHHHHHHHHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSP-----DFHTYNILLHVLGKGDKPLAALNLLNHMKEV-GFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  161 (300)
                      . +...++.+.+...|.++..+=++.     -...|..+....  ..+.+..+.+..++... |...-...+.-+-.-|.
T Consensus       140 ~-~yEkik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 D-KYEKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             H-HHHHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            3 334466677777776664432210     122444444322  34556666666665543 33333444555556677


Q ss_pred             hCCCHHHHHHHHHHHHhC
Q 043969          162 RAGNLDACKYFFDEMANK  179 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~  179 (300)
                      ...++.+|.+++..+.+.
T Consensus       217 ~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         217 ENENWTEAIRILKHILEH  234 (711)
T ss_pred             cccCHHHHHHHHHHHhhh
Confidence            778888888888766654

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

Probab=87.82  E-value=2  Score=20.73  Aligned_cols=27  Identities=15%  Similarity=0.299  Sum_probs=19.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +|..+...|...|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456667777777777777777777665

...

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.74  E-value=7.4  Score=27.12  Aligned_cols=17  Identities=12%  Similarity=0.047  Sum_probs=7.1

Q ss_pred             cCCChHHHHHHHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKE  143 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~  143 (300)
                      ..|++++|.++|+++.+
T Consensus        56 ~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        56 ARGNYDEAARILRELLS   72 (153)
T ss_pred             HcCCHHHHHHHHHhhhc
Confidence            33444444444444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.55  E-value=19  Score=31.67  Aligned_cols=212  Identities=14%  Similarity=0.089  Sum_probs=117.8

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHH----HH-HHhcCCHHHHHHHHHHHHh-------CCCCCCHhHHHHHHHHHhcC
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVM----CA-KYRLGKLDQFHRLLDEMGR-------SGFSPDFHTYNILLHVLGKG  128 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  128 (300)
                      ...+.++++...+.|.   ......+.    .+ +....|.+.|..+++...+       .|   .+.....+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            4568888888877762   22222222    22 3455688888888888766       44   233455566666653


Q ss_pred             C-----ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh-CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHH----hc
Q 043969          129 D-----KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR-AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYI----AA  198 (300)
Q Consensus       129 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~  198 (300)
                      .     +.+.|+.++....+.|. |+....-..+..... ..+...|..+|...-+.|.. .  .+-.+..+|.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~--A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-L--AIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-H--HHHHHHHHHHhCCCcC
Confidence            3     56778888888888763 344433333322222 24677888888888877632 2  2222222221    23


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HH---HHh----cCC
Q 043969          199 GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLV-SN---LRN----AGK  270 (300)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li-~~---~~~----~g~  270 (300)
                      .+...|..++++..+.| .|...--...+..+.. ++++.+.-.+..+.+.|... ..+-...+ ..   ...    ..+
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~-~q~~a~~l~~~~~~~~~~~~~~~~  454 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEV-AQSNAAYLLDQSEEDLFSRGVIST  454 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhH-HhhHHHHHHHhccccccccccccc
Confidence            47888888888888887 3332222333344444 67777776666666655431 11111111 11   111    225


Q ss_pred             HHHHHHHHHHHHHcC
Q 043969          271 LAEAHEVIRHMVEKG  285 (300)
Q Consensus       271 ~~~a~~~~~~~~~~~  285 (300)
                      .+.+...+.+....|
T Consensus       455 ~~~~~~~~~~a~~~g  469 (552)
T KOG1550|consen  455 LERAFSLYSRAAAQG  469 (552)
T ss_pred             hhHHHHHHHHHHhcc
Confidence            666666666666666

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=87.38  E-value=3.5  Score=25.07  Aligned_cols=46  Identities=15%  Similarity=0.127  Sum_probs=26.2

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHH
Q 043969          232 MAGKFDEACTMMKEMESRGCNPN--FLVYNTLVSNLRNAGKLAEAHEV  277 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~  277 (300)
                      ...+.++|+..|....+.-..+.  ..++..++++|...|++++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666665422222  23455666666666666666554

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=86.51  E-value=3.2  Score=33.24  Aligned_cols=55  Identities=11%  Similarity=0.177  Sum_probs=41.0

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      .+-|.+.|.+++|++.|......  .| +.+++..-..+|.+..++..|..=-...+.
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia  159 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA  159 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH
Confidence            35677888888888888777665  34 778888888888888888877765555544

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=85.76  E-value=17  Score=29.26  Aligned_cols=57  Identities=18%  Similarity=0.289  Sum_probs=26.9

Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhC---CCCCccccHH--HHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          157 MDGLSRAGNLDACKYFFDEMANK---GCMPDVVCYT--VMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~--~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      +....+.++.++|.++++++.+.   --.|+...|.  .+...+...|+.+++.+++.+..+
T Consensus        82 l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~  143 (380)
T KOG2908|consen   82 LVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKS  143 (380)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            33444445566666666555432   1123333332  233444455555555555555544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.64  E-value=12  Score=27.63  Aligned_cols=87  Identities=10%  Similarity=0.024  Sum_probs=38.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCC-----HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           91 YRLGKLDQFHRLLDEMGRSGFSPD-----FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      .+.|++++|..-|......- ++.     ...|..-..++.+.+.++.|+.-..+.++.+.. .......-..+|.+...
T Consensus       106 F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  106 FKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhhh
Confidence            34555555555555544431 111     112222233445555555555555555443211 11111222334555555


Q ss_pred             HHHHHHHHHHHHhC
Q 043969          166 LDACKYFFDEMANK  179 (300)
Q Consensus       166 ~~~a~~~~~~~~~~  179 (300)
                      ++.|+.=|..+.+.
T Consensus       184 ~eealeDyKki~E~  197 (271)
T KOG4234|consen  184 YEEALEDYKKILES  197 (271)
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555555544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=84.98  E-value=25  Score=30.59  Aligned_cols=120  Identities=15%  Similarity=0.213  Sum_probs=54.3

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHH
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQ--LPNVFTYNSMIR  228 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~  228 (300)
                      .+|...+..-.+.|+.+.+.-+|+...-. +..=...|-..+.-....|+.+-|..++....+--.  .|....+.+.+.
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~  376 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFE  376 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHH
Confidence            44455555555555555555555544321 111122233333333334555555555554443322  223333332222


Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHH
Q 043969          229 GFCMAGKFDEACTMMKEMESRGCNPNFLV-YNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~  275 (300)
                        -..|++..|..+++.+.+.-  |+..- -..-+....+.|+.+.+.
T Consensus       377 --e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  377 --ESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             --HhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhh
Confidence              23467777777777766642  33221 112233345666666665

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.94  E-value=13  Score=27.30  Aligned_cols=90  Identities=12%  Similarity=0.074  Sum_probs=43.3

Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCc--HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCH
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPS--VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGEL  201 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  201 (300)
                      .+...+++++|..-++.........+  ...-..|.+.....|.++.|...++.....+.  .......--..+...|+-
T Consensus        98 ~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k  175 (207)
T COG2976          98 AEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDK  175 (207)
T ss_pred             HHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCch
Confidence            35555666666666655543211100  11112333445556666666666655554421  112222333455566666


Q ss_pred             HHHHHHHHHHHHCC
Q 043969          202 EKAQDLFDGMITKG  215 (300)
Q Consensus       202 ~~a~~~~~~~~~~~  215 (300)
                      ++|..-|....+.+
T Consensus       176 ~~Ar~ay~kAl~~~  189 (207)
T COG2976         176 QEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHHcc
Confidence            66666666665553

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=84.90  E-value=32  Score=31.67  Aligned_cols=193  Identities=14%  Similarity=0.109  Sum_probs=104.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH-------hHHHHHHH-HHhcCCChHHHHHHHHHHHHc----CCCCcHhhHHHHH
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDF-------HTYNILLH-VLGKGDKPLAALNLLNHMKEV----GFDPSVLHFTTLM  157 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  157 (300)
                      .....++++|..++.++...-..|+.       ..++.+-. .....|++++|.++-+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            34568899999998887554322221       12333322 234578899999988877654    1223445566677


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhCCCCCcccc---HHHHH--HHHHhcCCH--HHHHHHHHHHHHC--CCC----CCHHHHH
Q 043969          158 DGLSRAGNLDACKYFFDEMANKGCMPDVVC---YTVMI--TSYIAAGEL--EKAQDLFDGMITK--GQL----PNVFTYN  224 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li--~~~~~~~~~--~~a~~~~~~~~~~--~~~----p~~~~~~  224 (300)
                      .+..-.|++++|..+.....+.--.-+...   |..+.  ..+...|+.  .+....|......  +-+    +-..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            777888999999998877765422223332   23332  224455632  2333333333222  111    1234455


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHCC--CCCCH--HHH--HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          225 SMIRGFCMAGKFDEACTMMKEMESRG--CNPNF--LVY--NTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~--~~~--~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+..++.+   .+.+..-...-.+.|  ..|..  ...  ..++......|+.++|...+.++....
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~  648 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLL  648 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Confidence            55555555   333322222222211  12222  222  256667788899999999998887643

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.76  E-value=11  Score=26.30  Aligned_cols=50  Identities=12%  Similarity=0.009  Sum_probs=24.1

Q ss_pred             cCcHHHHHHHHHHhhhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           58 IRQYKLIEWVYQQMSDEGYA-PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .++.+++..+++.|.-..++ +...++...  .+...|++++|.++|+.+.+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhcc
Confidence            45555555555555443211 122233222  244556666666666665544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=84.66  E-value=9.3  Score=28.10  Aligned_cols=34  Identities=15%  Similarity=0.225  Sum_probs=22.9

Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          216 QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       216 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ..|+..+|..++.++...|+.++|.++.+++...
T Consensus       140 ~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  140 RRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4566677777777777777777777766666653

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.78  E-value=19  Score=28.10  Aligned_cols=89  Identities=16%  Similarity=0.200  Sum_probs=44.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC-----CCC------CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CCCCHH
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITK-----GQL------PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-CNPNFL  256 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~  256 (300)
                      ..+...|...+++.+..++++++...     |-.      .=...|..=|+.|....+-.+...+++...... --|.+.
T Consensus       149 tKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPl  228 (440)
T KOG1464|consen  149 TKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPL  228 (440)
T ss_pred             chHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchH
Confidence            34555555666666666666655432     100      013456666666666666666666666555321 123332


Q ss_pred             HHHHHHHHH-----HhcCCHHHHHHHH
Q 043969          257 VYNTLVSNL-----RNAGKLAEAHEVI  278 (300)
Q Consensus       257 ~~~~li~~~-----~~~g~~~~a~~~~  278 (300)
                      .. .+|+-|     .+.|++++|..-|
T Consensus       229 Im-GvIRECGGKMHlreg~fe~AhTDF  254 (440)
T KOG1464|consen  229 IM-GVIRECGGKMHLREGEFEKAHTDF  254 (440)
T ss_pred             HH-hHHHHcCCccccccchHHHHHhHH
Confidence            22 233333     4556666665433

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.62  E-value=32  Score=30.74  Aligned_cols=182  Identities=13%  Similarity=0.182  Sum_probs=104.2

Q ss_pred             HHHHHHHhh-hcCCCcCHH--HHHHHHHHHH-ccCcHHHHHHHHHHhhhCCCCCCHh-----hHHHHHHHHHhcCCHHHH
Q 043969           29 VVERFIKSK-LFNFRPFKN--SYNAILHALL-GIRQYKLIEWVYQQMSDEGYAPDIL-----TYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        29 a~~~~~~~~-~~~~~~~~~--~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a   99 (300)
                      |+..++... ....+|...  ++-.+...+. ...+++.|+..+++.....-+++..     ....++..+.+.+... |
T Consensus        40 ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a  118 (608)
T PF10345_consen   40 AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-A  118 (608)
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-H
Confidence            445555544 344444433  5666677665 7788999999999775543222222     1234456666666555 8


Q ss_pred             HHHHHHHHhCC----CCCCHhHHHHH-HHHHhcCCChHHHHHHHHHHHHcC---CCCcHhhHHHHHHHHH--hCCCHHHH
Q 043969          100 HRLLDEMGRSG----FSPDFHTYNIL-LHVLGKGDKPLAALNLLNHMKEVG---FDPSVLHFTTLMDGLS--RAGNLDAC  169 (300)
Q Consensus       100 ~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~~a  169 (300)
                      .+.+++..+.-    ..+-...|..+ +..+...+++..|.+.++.+....   ..|...++-.++.+..  ..+..+.+
T Consensus       119 ~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~  198 (608)
T PF10345_consen  119 LKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDV  198 (608)
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhH
Confidence            88887764431    11222333333 333333479999999998886542   2344445555555543  45556677


Q ss_pred             HHHHHHHHhCC---------CCCccccHHHHHHHHH--hcCCHHHHHHHHHHH
Q 043969          170 KYFFDEMANKG---------CMPDVVCYTVMITSYI--AAGELEKAQDLFDGM  211 (300)
Q Consensus       170 ~~~~~~~~~~~---------~~~~~~~~~~li~~~~--~~~~~~~a~~~~~~~  211 (300)
                      .+..+.+....         ..|...+|..+++.++  ..|+++.+...++++
T Consensus       199 ~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  199 LELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77776663321         1334556777766554  577777776666554

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PRK09687 putative lyase; Provisional

Probab=83.39  E-value=20  Score=28.26  Aligned_cols=233  Identities=10%  Similarity=-0.053  Sum_probs=137.0

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcH----HHHHHHHHHhhhCCCCCCHhhHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQY----KLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      |..+....+..+...|. .++...+..+..   .+|...-...+.++...|..    +++...+..+...  .|+..+-.
T Consensus        36 d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~  109 (280)
T PRK09687         36 NSLKRISSIRVLQLRGG-QDVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRA  109 (280)
T ss_pred             CHHHHHHHHHHHHhcCc-chHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHH
Confidence            33344444455555443 334444444332   33444445556666666653    4566667666443  34555555


Q ss_pred             HHHHHHHhcCC-----HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           85 IVMCAKYRLGK-----LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        85 ~l~~~~~~~~~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ..+.++...+.     ...+...+.....   .++..+-...+.++.+.++ +.++..+-.+.+.   ++.......+.+
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~a  182 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHH
Confidence            55555554432     1233344433333   3466677777888888876 4566666666653   455566666667


Q ss_pred             HHhCC-CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH
Q 043969          160 LSRAG-NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       160 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      +.+.+ +...+...+..+..   .++...-...+.++.+.++. .|...+-+..+.+   +  .....+.++...|+. +
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~  252 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-T  252 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-h
Confidence            77653 24456666666654   35777778888888888884 5666666665543   2  234678888888885 6


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043969          239 ACTMMKEMESRGCNPNFLVYNTLVSNLR  266 (300)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~li~~~~  266 (300)
                      |...+..+.+.  .||..+-...+.++.
T Consensus       253 a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        253 LLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             HHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            88888888764  357766666666554

>PRK11619 lytic murein transglycosylase; Provisional

Probab=83.21  E-value=35  Score=30.77  Aligned_cols=126  Identities=11%  Similarity=0.119  Sum_probs=71.4

Q ss_pred             CCCHHHHHHHHHHHHhCC-CCCcc--ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 043969          163 AGNLDACKYFFDEMANKG-CMPDV--VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~-~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      ..+.+.|...+....... ..+..  ..+..+.......+..++|...+.......  .+......-+..-...++++.+
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHH
Confidence            345566777776653332 21111  122333322233322455555555443221  2444455556666688999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcChHHHHH
Q 043969          240 CTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLV  291 (300)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~l~  291 (300)
                      ...+..|.... .-...-.--+.+++...|+.++|...|+++.....|-..+
T Consensus       332 ~~~i~~L~~~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~~~~fYG~L  382 (644)
T PRK11619        332 NTWLARLPMEA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLMQQRGFYPMV  382 (644)
T ss_pred             HHHHHhcCHhh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhcCCCcHHHH
Confidence            88888876532 2233334446677777899999999999987655554443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=82.48  E-value=25  Score=28.58  Aligned_cols=192  Identities=13%  Similarity=0.054  Sum_probs=100.4

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCC---C-CCCHhhHHHHHHHHH
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEG---Y-APDILTYNIVMCAKY   91 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~l~~~~~   91 (300)
                      ...+.-+.|+|+...+........  .++...|.++...  +.++++++...++.+.+.-   . ......|........
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~   79 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLV   79 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            345667788998866666555432  3445555555443  7888888888887776531   0 011222222222222


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc-----CCChHH---HHHHHHHHHH--cCCCCcHhhHHHHHHHHH
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK-----GDKPLA---ALNLLNHMKE--VGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~---a~~~~~~~~~--~~~~~~~~~~~~l~~~~~  161 (300)
                      +...+.+..++.+-.....  .+......++..+..     .++++.   .+.+-..+..  ........++..++..+.
T Consensus        80 ~lq~L~Elee~~~~~~~~~--~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aR  157 (352)
T PF02259_consen   80 KLQQLVELEEIIELKSNLS--QNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLAR  157 (352)
T ss_pred             HHhHHHHHHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Confidence            3222333332222221110  001111222221111     111111   1111111111  112334567888889999


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCC---ccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMP---DVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      +.|.++.|...+..+...+...   .+.....-+......|+..+|+..++...+
T Consensus       158 k~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  158 KAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999998887653222   334445556667788899999998888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=82.05  E-value=17  Score=26.43  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=12.8

Q ss_pred             HHHHhccCCHHHHHHHHHHHHH
Q 043969          227 IRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +..|.+.|.+++|.+++++...
T Consensus       118 V~VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         118 VAVCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHHHhcCchHHHHHHHHHHhc
Confidence            3455666666666666665554

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=81.32  E-value=6.6  Score=21.23  Aligned_cols=31  Identities=10%  Similarity=0.220  Sum_probs=16.8

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          232 MAGKFDEACTMMKEMESRGCNPNFLVYNTLV  262 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  262 (300)
                      +.|-..++..++++|.+.|+..+...+..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            4455555555555555555555555555444

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=81.00  E-value=26  Score=27.87  Aligned_cols=175  Identities=13%  Similarity=0.190  Sum_probs=75.5

Q ss_pred             CcCHHHHHHHHH-HHHccCc-HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHH
Q 043969           42 RPFKNSYNAILH-ALLGIRQ-YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYN  119 (300)
Q Consensus        42 ~~~~~~~~~l~~-~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (300)
                      .|+..+++.|.. .+.+.|- ..-|.++|+.....      ...+.+++++.+.+.-+..+++|        ||+-.+-.
T Consensus       162 t~~~tvl~~L~~d~LVkeGi~l~F~~~lFk~~~~E------k~i~~lis~Lrkg~md~rLmeff--------Ppnkrs~E  227 (412)
T KOG2297|consen  162 TLPATVLQSLLNDNLVKEGIALSFAVKLFKEWLVE------KDINDLISSLRKGKMDDRLMEFF--------PPNKRSVE  227 (412)
T ss_pred             CCCHHHHHHHHHhhHHHHhHHHHHHHHHHHHHHhh------ccHHHHHHHHHhcChHhHHHHhc--------CCcchhHH
Confidence            455555665554 3344443 34566777776644      22355666665544433333332        55555555


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHH-HHHHhCCCCCccccHHHHHHHHHhc
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFF-DEMANKGCMPDVVCYTVMITSYIAA  198 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~li~~~~~~  198 (300)
                      .....+...|--+-..-.-.++.. |  .-...-..|.+-..+...+++..... ++|.+.+ -|+......+-++....
T Consensus       228 ~Fak~Ft~agL~elvey~~~q~~~-~--a~kElq~~L~~q~s~e~p~~evi~~VKee~k~~n-lPe~eVi~ivWs~iMsa  303 (412)
T KOG2297|consen  228 HFAKYFTDAGLKELVEYHRNQQSE-G--ARKELQKELQEQVSEEDPVKEVILYVKEEMKRNN-LPETEVIGIVWSGIMSA  303 (412)
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHH-H--HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcC-CCCceEEeeeHhhhhHH
Confidence            555544444422211111111100 0  00011122233333344445544444 3444444 34544332222222233


Q ss_pred             CCHHHHHHHHHH-HHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 043969          199 GELEKAQDLFDG-MITKGQLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       199 ~~~~~a~~~~~~-~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      ..|.+-.++..+ ..+     ...+|..|+.+++..|+.+..
T Consensus       304 veWnKkeelva~qalr-----hlK~yaPLL~af~s~g~sEL~  340 (412)
T KOG2297|consen  304 VEWNKKEELVAEQALR-----HLKQYAPLLAAFCSQGQSELE  340 (412)
T ss_pred             HhhchHHHHHHHHHHH-----HHHhhhHHHHHHhcCChHHHH
Confidence            333332222221 111     345677788888888876544

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=80.99  E-value=11  Score=23.51  Aligned_cols=65  Identities=17%  Similarity=0.165  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 043969          204 AQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEA  274 (300)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  274 (300)
                      +.+++..+.+.|+- +......+-.+-...|+.+.|.+++..+. .|    +..|..++.++.+.|.-+-|
T Consensus        21 ~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg----~~aF~~Fl~aLreT~~~~LA   85 (88)
T cd08819          21 TRDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QK----EGWFSKFLQALRETEHHELA   85 (88)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cC----CcHHHHHHHHHHHcCchhhh
Confidence            34455555555543 33333333332234466666666666665 32    23455666666666655444

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.66  E-value=49  Score=30.83  Aligned_cols=166  Identities=14%  Similarity=0.163  Sum_probs=0.0

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHH---cCCCCcHhhHHHHHHHHHhCCCH--HHHHHHHHHHHhCCCCCccccHHH--
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKE---VGFDPSVLHFTTLMDGLSRAGNL--DACKYFFDEMANKGCMPDVVCYTV--  190 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~--  190 (300)
                      |..|+..|...|..++|+++|.+..+   ..-..-...+..+++.+.+.+..  +-.++.-+...+.........+..  
T Consensus       507 y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~~  586 (877)
T KOG2063|consen  507 YRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSED  586 (877)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeeccC


Q ss_pred             ----------HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC-----------------HHHHHHHH
Q 043969          191 ----------MITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGK-----------------FDEACTMM  243 (300)
Q Consensus       191 ----------li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  243 (300)
                                -+-.|......+-+..+++.+....-.++....+.++..|++.=+                 .+......
T Consensus       587 ~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~v~~~~~~~~kg~e~~E~~~rekl~~~l  666 (877)
T KOG2063|consen  587 KQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEKVLEQASTDGKGEEAPETTVREKLLDFL  666 (877)
T ss_pred             hhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHHHhhccCchhccccchhhhHHHHHHHHh


Q ss_pred             HHHHHCCCC------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          244 KEMESRGCN------PNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       244 ~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +.-......      |....|....-.+.+.|+.++|+.++-..++
T Consensus       667 ~~s~~Y~p~~~L~~~~~~~l~ee~aill~rl~khe~aL~Iyv~~L~  712 (877)
T KOG2063|consen  667 ESSDLYDPQLLLERLNGDELYEERAILLGRLGKHEEALHIYVHELD  712 (877)
T ss_pred             hhhcccCcchhhhhccchhHHHHHHHHHhhhhhHHHHHHHHHHHhc

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=80.45  E-value=6.9  Score=23.84  Aligned_cols=46  Identities=7%  Similarity=0.055  Sum_probs=26.0

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHH
Q 043969           57 GIRQYKLIEWVYQQMSDEGYAPD--ILTYNIVMCAKYRLGKLDQFHRL  102 (300)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~  102 (300)
                      ..++.++|+..|....+.-..|.  -.++..++.+++..|++.++++.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666665533321  12344555666667766666554

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.30  E-value=8  Score=33.56  Aligned_cols=91  Identities=12%  Similarity=0.090  Sum_probs=67.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 043969          194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAE  273 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  273 (300)
                      .+...|+...|...+.........-.......|.+...+.|....|..++....... ...+.++-.+.+++....+++.
T Consensus       616 ywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~  694 (886)
T KOG4507|consen  616 YWRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISG  694 (886)
T ss_pred             eeeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHH
Confidence            344568888888888877655333233445566777777788888988888777654 3455677788889999999999


Q ss_pred             HHHHHHHHHHcC
Q 043969          274 AHEVIRHMVEKG  285 (300)
Q Consensus       274 a~~~~~~~~~~~  285 (300)
                      |++.|++..+..
T Consensus       695 a~~~~~~a~~~~  706 (886)
T KOG4507|consen  695 ALEAFRQALKLT  706 (886)
T ss_pred             HHHHHHHHHhcC
Confidence            999999998876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	300
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		5e-04

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 65/160 (40%), Gaps = 28/160 (17%)
Query: 80  ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLN 139
           +L   + MC+K   G + +  RL DE  R+G     + YN+LL+V           +L  
Sbjct: 28  LLKQKLDMCSKK--GDVLEALRLYDEARRNGVQLSQYHYNVLLYV----------CSLAE 75
Query: 140 HMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAG 199
              E   +P          GLSR  ++      F +M     +P+   +T      +A  
Sbjct: 76  AATESSPNP----------GLSRGFDI------FKQMIVDKVVPNEATFTNGARLAVAKD 119
Query: 200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEA 239
           + E A D+   M   G  P + +Y   + GFC  G  D+A
Sbjct: 120 DPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	300
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 78.3 bits (191), Expect = 3e-16
 Identities = 30/167 (17%), Positives = 53/167 (31%), Gaps = 4/167 (2%)

Query: 35  KSKLFNFRPFKNSYNAILHALLGIRQYKLIEWV---YQQMSDEGYAPDILTYNIVMCAKY 91
           +         +    A     L   Q  L   +   +     +     +  YN VM    
Sbjct: 117 QHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWA 176

Query: 92  RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALN-LLNHMKEVGFDPSV 150
           R G   +   +L  +  +G +PD  +Y   L  +G+ D+    +   L  M + G     
Sbjct: 177 RQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQA 236

Query: 151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA 197
           L    L+    RA  L A        +    +P  V  + ++    A
Sbjct: 237 LFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 74.9 bits (182), Expect = 4e-15
 Identities = 23/188 (12%), Positives = 47/188 (25%), Gaps = 4/188 (2%)

Query: 102 LLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS 161
           L D   ++  SP       LL                    +                  
Sbjct: 79  LEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL 138

Query: 162 RAGNLD-ACKYF--FDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP 218
               L  A            K  +  +  Y  ++  +   G  ++   +   +   G  P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 219 NVFTYNSMIRGFCMAGKFDEAC-TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEV 277
           ++ +Y + ++      +        +++M   G     L    L+S    A  L   H+V
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 278 IRHMVEKG 285
                   
Sbjct: 259 KPTFSLPP 266

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.2 bits (175), Expect = 3e-14
 Identities = 27/217 (12%), Positives = 64/217 (29%), Gaps = 4/217 (1%)

Query: 42  RPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHR 101
            P++     +L    G     + +    Q S    +                 +L   H 
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHH 148

Query: 102 LLD---EMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD 158
           LL       +         YN ++    +       + +L  +K+ G  P +L +   + 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 159 GLSRAGNLDAC-KYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL 217
            + R        +   ++M+ +G     +   V+++    A  L+    +        QL
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

Query: 218 PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN 254
           P     + ++R             +   +++  C   
Sbjct: 269 PPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.8 bits (174), Expect = 4e-14
 Identities = 22/219 (10%), Positives = 55/219 (25%), Gaps = 4/219 (1%)

Query: 69  QQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG 128
                   +P       ++        LD       +  ++  S                
Sbjct: 81  DCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLT 140

Query: 129 DKPLAALNLLNHMKE---VGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV 185
           D+   A +LL             ++  +  +M G +R G      Y    + + G  PD+
Sbjct: 141 DQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDL 200

Query: 186 VCYTVMITSYIAAGELEKA-QDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMK 244
           + Y   +       +     +   + M  +G          ++     A        +  
Sbjct: 201 LSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKP 260

Query: 245 EMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE 283
                   P  +  + L+ ++          ++   +  
Sbjct: 261 TFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKT 299

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 66.0 bits (159), Expect = 3e-12
 Identities = 23/162 (14%), Positives = 51/162 (31%), Gaps = 4/162 (2%)

Query: 1   MIENGFPTTARTFNILI---CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG 57
             +       +             ++ LA  ++      +        + YNA++     
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 58  IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQ-FHRLLDEMGRSGFSPDFH 116
              +K + +V   + D G  PD+L+Y   +    R  +      R L++M + G      
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD 158
              +LL    +     A   +          P  ++ + L+ 
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLR 279

>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 = 41.8 bits (97), Expect = 2e-04
 Identities = 45/315 (14%), Positives = 98/315 (31%), Gaps = 95/315 (30%)

Query: 9   TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHAL-LGIRQYKLIEWV 67
           T R F  L  +  E     ++V++F++  L      + +Y  ++  +    RQ  ++  +
Sbjct: 64  TLRLFWTL-LSKQE-----EMVQKFVEEVL------RINYKFLMSPIKTEQRQPSMMTRM 111

Query: 68  YQQMSDEGY-APDILT-YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH-V 124
           Y +  D  Y    +   YN+      RL    +  + L E+  +         N+L+  V
Sbjct: 112 YIEQRDRLYNDNQVFAKYNV-----SRLQPYLKLRQALLELRPAK--------NVLIDGV 158

Query: 125 LGKGDKPLAALNLLNHMKEVGFDPSV--LHF------TTLMDGL---------------S 161
           LG G   +A    L++  +   D  +  L+        T+++ L                
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218

Query: 162 RAGNL--------DACKYFFDEMANKGCM--------PDVV------CYTVMITSYI--- 196
            + N+           +        + C+                  C  ++ T +    
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278

Query: 197 ----AAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN 252
               AA     + D     +T  ++ ++                D     +   E    N
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLL-----------LKYLDCRPQDLPR-EVLTTN 326

Query: 253 PNFLVYNTLVSNLRN 267
           P     + +  ++R+
Sbjct: 327 P--RRLSIIAESIRD 339

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	300
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.86
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.84
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.76
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.75
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.75
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.74
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.74
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.74
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.74
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.73
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.73
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.71
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.71
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.71
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.69
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.68
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.64
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.64
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.64
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.63
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.63
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.61
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.61
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.6
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.58
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.58
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.57
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.56
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.53
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.53
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.53
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.5
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.49
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.49
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.49
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.48
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.46
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.46
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.41
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.4
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.4
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.39
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.34
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.34
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.33
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.33
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.32
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.3
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.3
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.28
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.28
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.27
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.24
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.21
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.21
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.21
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.2
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.18
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.17
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.17
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.16
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.15
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.15
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.12
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.11
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.07
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.07
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.03
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.01
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.98
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.98
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.95
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.95
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.95
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.93
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.93
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.93
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.92
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.92
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.92
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.91
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.91
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.91
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.89
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.89
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.89
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.89
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.88
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.88
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.86
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.85
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.85
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.81
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.8
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.8
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.8
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.79
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.78
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.75
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.75
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.75
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.74
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.74
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.74
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.73
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.72
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.72
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.71
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.7
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.69
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.69
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.67
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.67
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.65
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.64
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.63
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.63
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.62
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.62
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.6
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.6
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.6
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.59
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.53
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.5
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.49
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.48
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.47
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.45
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.41
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.4
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.39
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.37
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.36
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.35
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.33
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.31
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.31
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.3
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.29
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.27
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.27
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.25
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.23
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.18
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.18
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.08
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.06
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.02
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.0
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.97
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.93
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.92
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.81
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.81
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.66
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.57
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.56
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.5
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.43
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.4
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.35
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.35
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.31
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.3
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.17
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.13
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.11
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.92
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.91
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.84
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.76
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.71
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.69
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.56
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.5
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.45
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.26
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.23
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.16
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.12
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.46
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.44
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.06
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.91
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.73
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.44
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.21
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.94
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.56
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.37
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.24
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.02
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.79
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.61
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.85
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.6
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.32
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.63
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.21
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	88.83
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.77
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	87.96
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.08
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	86.82
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	86.27
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	84.93
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	84.62
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	83.5
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.07
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	81.38
2d2s_A	235	Exocyst complex component EXO84; tethering complex	81.2
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	80.33
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	80.26

>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=7.9e-37  Score=254.27  Aligned_cols=204  Identities=13%  Similarity=0.146  Sum_probs=134.6

Q ss_pred             HHHHHHHhhhCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCC---------hHH
Q 043969           64 IEWVYQQMSDEGYAPDI-LTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDK---------PLA  133 (300)
Q Consensus        64 a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~  133 (300)
                      +..+.+++.+.+..+.+ ..++.+|.+|++.|++++|.++|++|.+.|++||..+|+.||.+|++.+.         .+.
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            34444455544443332 23555666666666666666666666666666666666666666655443         466


Q ss_pred             HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      |.++|++|...|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 043969          214 KGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRN  267 (300)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  267 (300)
                      .|+.||..||+.||.+|++.|++++|.+++++|.+.|..|+..||+.++..|..
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777777777777777777777777777777777777776654

>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=3.7e-36  Score=250.24  Aligned_cols=205  Identities=13%  Similarity=0.133  Sum_probs=167.0

Q ss_pred             HHHHHHHhhhcCCCcCH-HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC---------HHH
Q 043969           29 VVERFIKSKLFNFRPFK-NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK---------LDQ   98 (300)
Q Consensus        29 a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~   98 (300)
                      +..+.+++.+.+..+.. ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||.+|.+|++.+.         ++.
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            33444555555544433 36788888888999999999999999888888899999999888877654         678


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 043969           99 FHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      |.++|++|...|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          179 KGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       179 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      .|+.||..+|+.||.+|++.|++++|.+++++|.+.|..|+..||+.++..|...
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999888999999999888888753

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=1.9e-28  Score=210.53  Aligned_cols=238  Identities=8%  Similarity=-0.008  Sum_probs=149.8

Q ss_pred             cCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHH
Q 043969           43 PFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILL  122 (300)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (300)
                      ++..+|+.++..+.+.|++++|.++|+++.+.++. +..++..++.++.+.|++++|.++++.+.+.. +.+..++..++
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  380 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVG  380 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            45556666666666666666666666666655422 45556666666666666666666666655432 34566666666


Q ss_pred             HHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          123 HVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                      ..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|..++.+|.+.|+++
T Consensus       381 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  458 (597)
T 2xpi_A          381 IYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNIL  458 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHH
Confidence            66666777777777776666542 3345566666666777777777777776666543 335566666666666677777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCCHHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNPN--FLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      +|.++|+++.+... .+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+
T Consensus       459 ~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~  537 (597)
T 2xpi_A          459 LANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAID  537 (597)
T ss_dssp             HHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHH
Confidence            77777766665432 25666666677777777777777776666654    44555  5566666666777777777777


Q ss_pred             HHHHHHHcC
Q 043969          277 VIRHMVEKG  285 (300)
Q Consensus       277 ~~~~~~~~~  285 (300)
                      +++++.+.+
T Consensus       538 ~~~~~~~~~  546 (597)
T 2xpi_A          538 ALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhC
Confidence            776666544

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=2.8e-28  Score=209.53  Aligned_cols=273  Identities=9%  Similarity=-0.016  Sum_probs=248.3

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      +++..+|+.++..+.+.|++++|+++|+++...+ +.+..+++.++.++.+.|++++|.++++++.+.. +.+..+++.+
T Consensus       302 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  379 (597)
T 2xpi_A          302 EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAV  379 (597)
T ss_dssp             GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHH
Confidence            5899999999999999999999999999998765 3466789999999999999999999999998764 4478899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      +..|.+.|++++|.++|+++.+.. +.+..+|..++.+|.+.|++++|+++|+++.+.+ +.+..+++.++.+|.+.|++
T Consensus       380 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  457 (597)
T 2xpi_A          380 GIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNI  457 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCH
Confidence            999999999999999999998764 4568899999999999999999999999999874 55788999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHhccCCHHHHH
Q 043969          167 DACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLPN--VFTYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~  240 (300)
                      ++|.++|+.+.+.. +.+..+|+.++..+.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.
T Consensus       458 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~  536 (597)
T 2xpi_A          458 LLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAI  536 (597)
T ss_dssp             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHH
Confidence            99999999998764 347889999999999999999999999999876    66787  789999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +.++++.+.+ +.+..+|..+..+|.+.|++++|.+.++++.+..
T Consensus       537 ~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          537 DALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            9999999864 4478999999999999999999999999999876

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=9.6e-24  Score=171.97  Aligned_cols=273  Identities=13%  Similarity=0.078  Sum_probs=157.3

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      |.+..+|..+...+.+.|++++|++.|+++.... +.+..+|..+..++...|++++|.+.|+++.+..+. +...+..+
T Consensus        64 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  141 (388)
T 1w3b_A           64 PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDL  141 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            4456677777777777777777777777766553 223446667777777777777777777666665322 34445555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC--------------------
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGF--------------------  146 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------  146 (300)
                      ...+...|++++|.+.|+++.+.. +.+..+|..+...+...|++++|...|+++.+...                    
T Consensus       142 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~  220 (388)
T 1w3b_A          142 GNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFD  220 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTT
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHH
Confidence            566666666666666666665543 33455566666666666666666666665554321                    


Q ss_pred             -------------CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          147 -------------DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       147 -------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                                   +.+..++..+...+...|++++|...|+.+.+.. +.+..+|..+...+.+.|++++|...|+++.+
T Consensus       221 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  299 (388)
T 1w3b_A          221 RAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR  299 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                         1223444455555555555555555555555442 12334555555555555566666655555555


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          214 KGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .. +.+..++..+...+...|++++|...++++.+. .+.+..++..+..++.+.|++++|.+.++++.+..
T Consensus       300 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          300 LC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             hC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            42 234555555566666666666666666655543 12234555555566666666666666666665543

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.94  E-value=2.1e-23  Score=169.95  Aligned_cols=251  Identities=10%  Similarity=-0.005  Sum_probs=185.7

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKY   91 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (300)
                      .+..+...+...|++++|.+.|.++.... +.+..+|..+...+...|++++|...|+++.+..+. +...+..+...+.
T Consensus       137 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~  214 (388)
T 1w3b_A          137 VRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLK  214 (388)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHH
Confidence            34444455555555555655555555432 222345566666666666666666666666654322 4555666666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHH
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKY  171 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (300)
                      ..|++++|...+++..... +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...+.+.|++++|..
T Consensus       215 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  292 (388)
T 1w3b_A          215 EARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAED  292 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            6666666666666665543 3457788889999999999999999999999874 4467789999999999999999999


Q ss_pred             HHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 043969          172 FFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGC  251 (300)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (300)
                      .|+.+.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+..++.+.|++++|...++++.+.. 
T Consensus       293 ~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-  369 (388)
T 1w3b_A          293 CYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-  369 (388)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-
T ss_pred             HHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-
Confidence            999998873 5577899999999999999999999999998863 3468899999999999999999999999999752 


Q ss_pred             CCCHHHHHHHHHHHHhcC
Q 043969          252 NPNFLVYNTLVSNLRNAG  269 (300)
Q Consensus       252 ~~~~~~~~~li~~~~~~g  269 (300)
                      +.+...+..+...+...|
T Consensus       370 p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          370 PTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHhHHHHHHHcc
Confidence            234567777777666555

>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=1.5e-22  Score=167.99  Aligned_cols=200  Identities=11%  Similarity=-0.023  Sum_probs=106.1

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...+..+...+.+.|++++|+..|+++.... +.+..+|..+..++...|++++|...|+++.+.++. +..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHH
Confidence            44555666666666666666666666655542 334556666666666666666666666666655422 4555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCH---hHHHHHH------------HHHhcCCChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDF---HTYNILL------------HVLGKGDKPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      ++.+.|++++|...|+++.+.. +.+.   ..+..+.            ..+...|++++|...++++.+.. +.+...+
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  180 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELR  180 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            6666666666666666665542 1122   3333332            22455555555555555555442 2344445


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      ..+..+|.+.|++++|...|+.+.+.. +.+..++..+...+...|++++|...|+++.+
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555555544331 12334444455555555555555555554443

>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=99.92  E-value=1.2e-21  Score=162.56  Aligned_cols=270  Identities=13%  Similarity=0.091  Sum_probs=231.0

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH---hhH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI---LTY   83 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   83 (300)
                      |.+..+|..+...+...|++++|++.|+++...+ +.+..++..+...+...|++++|...|+++.+..+. +.   ..+
T Consensus        57 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~  134 (450)
T 2y4t_A           57 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQ  134 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHH
Confidence            4578889999999999999999999999998875 445678999999999999999999999999987432 34   555


Q ss_pred             HHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHh
Q 043969           84 NIV------------MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVL  151 (300)
Q Consensus        84 ~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (300)
                      ..+            ...+...|++++|...++.+.... +.+..++..+..+|.+.|++++|...++++.+.. +.+..
T Consensus       135 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  212 (450)
T 2y4t_A          135 SQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTE  212 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            555            344889999999999999998764 5578889999999999999999999999998763 55788


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc-cccHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD-VVCYTVM------------ITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l------------i~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      ++..+...|...|++++|...|+.+.+.  .|+ ...+..+            ...+...|++++|...|+++.+..  |
T Consensus       213 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p  288 (450)
T 2y4t_A          213 AFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--P  288 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--C
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--C
Confidence            9999999999999999999999999876  343 3344444            788999999999999999998853  4


Q ss_pred             C-----HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          219 N-----VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       219 ~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +     ...+..+..++.+.|++++|...++++.+.. +.+...+..+..+|...|++++|.+.++++.+..
T Consensus       289 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  359 (450)
T 2y4t_A          289 SIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN  359 (450)
T ss_dssp             SSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             cchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            4     4578899999999999999999999998752 3467899999999999999999999999998865

>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=99.91  E-value=3.8e-21  Score=152.88  Aligned_cols=275  Identities=11%  Similarity=-0.004  Sum_probs=234.7

Q ss_pred             CCCCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH
Q 043969            5 GFPTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      +.+.++..+..+...+...|++++|+++++++...+ +.+...+..++..+...|++++|..+++++.+..+. +...+.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHH
Confidence            456677788888889999999999999999988764 344557777888999999999999999999987533 678888


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           85 IVMCAKYRLG-KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        85 ~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      .+...+...| ++++|...+++..... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHH
Confidence            9999999999 9999999999998775 4567889999999999999999999999998874 34556777799999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHhccCC
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG--------QLPNVFTYNSMIRGFCMAGK  235 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------~~p~~~~~~~l~~~~~~~~~  235 (300)
                      |++++|...++...+.. +.+...+..+...+...|++++|...+++..+..        .+.+..++..+..++...|+
T Consensus       173 ~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          173 NNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            99999999999998764 3466788999999999999999999999987641        13346789999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          236 FDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +++|...+++..+.. +.+...+..+..++...|++++|.+.++++.+..
T Consensus       252 ~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          252 YAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            999999999999863 3367788999999999999999999999998865

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=3.6e-19  Score=142.96  Aligned_cols=271  Identities=11%  Similarity=0.045  Sum_probs=156.3

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCC--CCHhhHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYA--PDILTYNIV   86 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l   86 (300)
                      +..++..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++++.+..+.  .+...+..+
T Consensus        36 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l  114 (359)
T 3ieg_A           36 NYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQL  114 (359)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHH
Confidence            34555555566666666666666666655442 223345566666666666666666666666554320  133333333


Q ss_pred             ------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHH
Q 043969           87 ------------MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFT  154 (300)
Q Consensus        87 ------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (300)
                                  ...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+.
T Consensus       115 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  192 (359)
T 3ieg_A          115 VKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFY  192 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence                        345555666666666666665543 3445556666666666666666666666666542 33555666


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHH------------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--
Q 043969          155 TLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYT------------VMITSYIAAGELEKAQDLFDGMITKGQLPNV--  220 (300)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~--  220 (300)
                      .+...+...|++++|...++...+.. +.+...+.            .+...+.+.|++++|...++++.+.... +.  
T Consensus       193 ~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~  270 (359)
T 3ieg_A          193 KISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEY  270 (359)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHH
Confidence            66666666666666666666665542 11222222            1244466667777777777666654322 22  


Q ss_pred             --HHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          221 --FTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       221 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                        ..+..+..++...|++++|...+++..+.. +.+..++..+...+...|++++|.+.++++.+..
T Consensus       271 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          271 TVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence              224445667777777777777777776642 2355667777777777777777777777777655

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=5.1e-21  Score=154.57  Aligned_cols=266  Identities=8%  Similarity=-0.106  Sum_probs=213.5

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...+..+...+.+.|++++|++.|+++.... +.+..+|..+...+...|++++|...|+++.+..+ .+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            44558888889999999999999999988764 45667899999999999999999999999988753 36888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC-Hh----------HHHHHHHHHhcCCChHHHHHHHHHHHHcCCC-CcHhhHHHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPD-FH----------TYNILLHVLGKGDKPLAALNLLNHMKEVGFD-PSVLHFTTL  156 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l  156 (300)
                      .+...|++++|...++++.+..  |+ ..          .+..+...+...|++++|...++++.+.... ++..++..+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            9999999999999999987753  32 22          2334577889999999999999999887422 167888999


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF  236 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  236 (300)
                      ...+...|++++|...|+...+.. +.+..+|..+..++...|++++|...|+++.+... .+..++..+..+|...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP-GFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCH
Confidence            999999999999999999988763 34677899999999999999999999999988632 3588899999999999999


Q ss_pred             HHHHHHHHHHHHCCC---C--------CCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          237 DEACTMMKEMESRGC---N--------PNFLVYNTLVSNLRNAGKLAEAHEVIRH  280 (300)
Q Consensus       237 ~~a~~~~~~~~~~~~---~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~  280 (300)
                      ++|...++++.+...   .        .+...|..+..++...|+.+.+.+..++
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999886411   1        1357788899999999999988877654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=3.8e-19  Score=142.84  Aligned_cols=270  Identities=11%  Similarity=0.002  Sum_probs=225.6

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      |+..+..+...+...|++++|++.|++..... +.+..++..+...+...|++++|...++++.+..+. +...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHH
Confidence            56678888899999999999999999988764 445678999999999999999999999999987533 6788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC---CCHhHHHHH------------HHHHhcCCChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFS---PDFHTYNIL------------LHVLGKGDKPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      .+...|++++|...++.+.+.. +   .+...+..+            ...+...|++++|...++++.+.. +.+...+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            9999999999999999998774 2   244555544            578899999999999999998874 5577889


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH---------
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYN---------  224 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~---------  224 (300)
                      ..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..+.... +...+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHH
Confidence            999999999999999999999998763 446788999999999999999999999999876332 344333         


Q ss_pred             ---HHHHHHhccCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          225 ---SMIRGFCMAGKFDEACTMMKEMESRGCNPNF----LVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       225 ---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                         .+...+.+.|++++|...+++..+.... +.    ..+..+..++...|++++|.+.+++..+..
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  302 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME  302 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence               3367789999999999999999985322 22    235567788999999999999999999865

>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=99.88  E-value=2.2e-20  Score=148.23  Aligned_cols=269  Identities=8%  Similarity=-0.056  Sum_probs=222.9

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...+..+...+...|++++|...++++.... +.+...+..+...+...|++++|.+.++++.+..+ .+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-CCHHHHHHHHH
Confidence            44556777888899999999999999988764 34666889999999999999999999999998753 37888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHH--------------HH-HHhcCCChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNIL--------------LH-VLGKGDKPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      .+...|++++|.+.++++.... +.+...+..+              .. .+...|++++|...++++.+.. +.+...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            9999999999999999998764 3333344333              23 3778899999999999998874 4477889


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      ..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...++++.+... .+..++..+..++...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINP-GYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHh
Confidence            999999999999999999999998763 34567889999999999999999999999988643 3688899999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          234 GKFDEACTMMKEMESRGCNP-----------NFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      |++++|.+.+++..+.....           +...+..+..++...|+.++|..++++.++
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999998752221           467888999999999999999999876543

>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=99.88  E-value=2.7e-20  Score=150.32  Aligned_cols=267  Identities=10%  Similarity=-0.070  Sum_probs=195.4

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ...+..+...+.+.|++++|+..++++.... +.+..+|..+...+...|++++|...|+++.+..+. +..++..+...
T Consensus        64 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~  141 (368)
T 1fch_A           64 HPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVS  141 (368)
T ss_dssp             CSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            4556677788888888888888888877654 345567888888888888888888888888876533 67778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHH---------------HHHHHhcCCChHHHHHHHHHHHHcCCCC-cHhhH
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI---------------LLHVLGKGDKPLAALNLLNHMKEVGFDP-SVLHF  153 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~  153 (300)
                      +...|++++|...++++.... +.+...+..               .+..+...|++++|...++++.+..... +..++
T Consensus       142 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          142 FTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            888888888888888887764 222222221               1233337788888888888887763221 46777


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      ..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+..+|.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            888888888888888888888877653 3346678888888888888888888888887753 23677788888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCC----------CCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          234 GKFDEACTMMKEMESRGCN----------PNFLVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~----------~~~~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      |++++|...+++..+....          ....+|..+..+|...|+.++|..++++.
T Consensus       299 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            8888888888887763111          11567888888888888888888777643

>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=99.87  E-value=3e-19  Score=144.21  Aligned_cols=259  Identities=11%  Similarity=-0.016  Sum_probs=206.3

Q ss_pred             hccccHHHHHH-HHHHhhhcCC-Cc--CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           21 GEVGLARKVVE-RFIKSKLFNF-RP--FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        21 ~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      .-.+++++|++ .+.+...... .|  +...+..+...+...|++++|...|+++.+..+ .+..++..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCH
Confidence            34578888888 8887655421 12  344688899999999999999999999998854 3788899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHH---------------HHHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTT---------------LMDGLS  161 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~  161 (300)
                      ++|...++++.+.. +.+..++..+...+...|++++|...++++...... +...+..               .+..+.
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            99999999998875 557889999999999999999999999999886422 2222221               233444


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  240 (300)
                      ..|++++|...++.+.+..... +..++..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHH
Confidence            8899999999999998763221 46788999999999999999999999998863 336889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          241 TMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..++++.+.. +.+...+..+..+|.+.|++++|...++++.+.
T Consensus       272 ~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          272 AAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999998863 346788999999999999999999999999874

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=3.6e-19  Score=149.99  Aligned_cols=164  Identities=15%  Similarity=0.072  Sum_probs=102.2

Q ss_pred             hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHH
Q 043969          116 HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY  195 (300)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (300)
                      .++..+...+...|++++|...++++.+....  ...+..+...+...|++++|...++.+.+.. +.+...+..+...+
T Consensus       238 ~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  314 (514)
T 2gw1_A          238 ISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMN  314 (514)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHH
Confidence            34555555566666666666666666554322  5555666666666666666666666665542 23455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043969          196 IAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  275 (300)
                      ...|++++|...++++.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus       315 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  392 (514)
T 2gw1_A          315 FILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKAL  392 (514)
T ss_dssp             HHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHH
Confidence            7777777777777776665322 45566667777777777777777777766542 224456666666777777777777


Q ss_pred             HHHHHHHHc
Q 043969          276 EVIRHMVEK  284 (300)
Q Consensus       276 ~~~~~~~~~  284 (300)
                      +.++++.+.
T Consensus       393 ~~~~~a~~~  401 (514)
T 2gw1_A          393 KQYDLAIEL  401 (514)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777776654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.86  E-value=8.8e-19  Score=139.18  Aligned_cols=260  Identities=10%  Similarity=-0.044  Sum_probs=217.2

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIR-QYKLIEWVYQQMSDEGYAPDILTYNI   85 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (300)
                      |.+...+..++..+...|++++|...+.++.... +.+...|..+...+...| ++++|...|+++.+.... +...+..
T Consensus        53 p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~  130 (330)
T 3hym_B           53 PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIA  130 (330)
T ss_dssp             TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHH
T ss_pred             CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHH
Confidence            3455666777888889999999999999988764 345668899999999999 999999999999987533 6778999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      +...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+
T Consensus       131 l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~  208 (330)
T 3hym_B          131 YGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGE  208 (330)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccc
Confidence            9999999999999999999998875 4456778889999999999999999999998874 5567889999999999999


Q ss_pred             HHHHHHHHHHHHhCC--------CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHH
Q 043969          166 LDACKYFFDEMANKG--------CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFD  237 (300)
Q Consensus       166 ~~~a~~~~~~~~~~~--------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  237 (300)
                      +++|...++...+..        .+....++..+..++...|++++|...+++..+... .+...+..+..++...|+++
T Consensus       209 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~  287 (330)
T 3hym_B          209 WKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFE  287 (330)
T ss_dssp             HHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHH
Confidence            999999999987641        133456889999999999999999999999988643 36788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCCHH
Q 043969          238 EACTMMKEMESRGCNPNFLVYNTLVSNL-RNAGKLA  272 (300)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~  272 (300)
                      +|.+.+++..+.. +.+...+..+..++ ...|+.+
T Consensus       288 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          288 NAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            9999999988752 33567777777777 5666654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=3.4e-19  Score=150.16  Aligned_cols=269  Identities=10%  Similarity=-0.053  Sum_probs=226.8

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ...+......+.+.|++++|+..|+++...+  |+...|..+..++...|++++|...++++.+..+. +..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-YSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH-HHHHHHHHHHH
Confidence            4566777888999999999999999998874  78889999999999999999999999999987633 67899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCC----------------------------------------------------------
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGF----------------------------------------------------------  111 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~----------------------------------------------------------  111 (300)
                      +...|++++|...|+.+...+-                                                          
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            9999999999999998866541                                                          


Q ss_pred             --------------------CCCHhHHHHHHHHHhc---CCChHHHHHHHHHHHH-----cCC--------CCcHhhHHH
Q 043969          112 --------------------SPDFHTYNILLHVLGK---GDKPLAALNLLNHMKE-----VGF--------DPSVLHFTT  155 (300)
Q Consensus       112 --------------------~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~  155 (300)
                                          +.+...+......+..   .|++++|...++++.+     ..-        +.+...+..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                1114455555554444   8999999999999987     311        234567888


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGK  235 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  235 (300)
                      +...+...|++++|...++.+.+..  |+...+..+..++...|++++|...++++.+... .+...+..+...+...|+
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCC
Confidence            8999999999999999999998874  3477888999999999999999999999988743 367889999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          236 FDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      +++|...+++..+.. +.+...+..+...+...|++++|...++++.+..
T Consensus       320 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  368 (514)
T 2gw1_A          320 YDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF  368 (514)
T ss_dssp             TTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            999999999999863 3356788889999999999999999999998865

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.86  E-value=1.2e-18  Score=135.94  Aligned_cols=253  Identities=15%  Similarity=0.137  Sum_probs=200.7

Q ss_pred             HHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHH
Q 043969           18 CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLD   97 (300)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (300)
                      +.....|++.+|++.+++....+..+.......+.+++...|+++.|+..++.   . -+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHH
Confidence            44455799999999998876543222233556778999999999999876643   2 3567778888889999999999


Q ss_pred             HHHHHHHHHHhCCCCC-CHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043969           98 QFHRLLDEMGRSGFSP-DFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEM  176 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (300)
                      +|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|...++.+
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999998776434 556677777889999999999999987      467788889999999999999999999999


Q ss_pred             HhCCCCCccccHHHH----HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 043969          177 ANKGCMPDVVCYTVM----ITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN  252 (300)
Q Consensus       177 ~~~~~~~~~~~~~~l----i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (300)
                      .+..  |+.. ...+    +..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++..+.. +
T Consensus       157 ~~~~--p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          157 QDQD--EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHC--TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HhhC--cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            8763  5532 2233    23344458999999999999987 44588899999999999999999999999988863 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHcC
Q 043969          253 PNFLVYNTLVSNLRNAGKLAE-AHEVIRHMVEKG  285 (300)
Q Consensus       253 ~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~  285 (300)
                      -+..++..++..+...|+.++ +.++++++.+.+
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            467788889999999999875 678999988776

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.86  E-value=3.9e-19  Score=143.54  Aligned_cols=237  Identities=11%  Similarity=-0.028  Sum_probs=197.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +...+..+...+.+.|++++|...|+++.+..+. +..++..+...+...|++++|...|+++.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            3446888999999999999999999999987543 78899999999999999999999999998875 456889999999


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHh----------hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC-CccccHHHHH
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVL----------HFTTLMDGLSRAGNLDACKYFFDEMANKGCM-PDVVCYTVMI  192 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li  192 (300)
                      +|...|++++|...++++.+.. +.+..          .+..+...+...|++++|...++.+.+.... ++..++..+.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            9999999999999999998753 11222          2334578899999999999999999886322 1577899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 043969          193 TSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLA  272 (300)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  272 (300)
                      ..+...|++++|...|+++.+.. +.+..+|..+..+|...|++++|...+++..+.. +.+..++..+..+|...|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            99999999999999999998874 3478899999999999999999999999999862 335788999999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 043969          273 EAHEVIRHMVEKG  285 (300)
Q Consensus       273 ~a~~~~~~~~~~~  285 (300)
                      +|...++++.+..
T Consensus       299 ~A~~~~~~al~~~  311 (365)
T 4eqf_A          299 EAVSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999998743

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=2.7e-21  Score=167.01  Aligned_cols=113  Identities=11%  Similarity=0.157  Sum_probs=56.8

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHh---CCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMAN---KGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMI  227 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  227 (300)
                      .||+++|++|++.|++++|..+|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+.+|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3455555555555555555555544432   2445555555555555555555555555555555555555555555555


Q ss_pred             HHHhccCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          228 RGFCMAGK-FDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       228 ~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      .++++.|+ .++|.++|++|.+.|+.||..+|+.++.
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~  244 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLS  244 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCC
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccC
Confidence            55555444 2444455555555555555555554443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.84  E-value=1.3e-20  Score=162.80  Aligned_cols=161  Identities=20%  Similarity=0.236  Sum_probs=131.1

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhh---CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSD---EGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILL  122 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (300)
                      .+|+++|.+|++.|+.++|.++|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3899999999999999999999988764   5899999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCh-HHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc------cccHHHHHHHH
Q 043969          123 HVLGKGDKP-LAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD------VVCYTVMITSY  195 (300)
Q Consensus       123 ~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~  195 (300)
                      .++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.    .+++..+.+ ..+..|+      ..+...|.+.|
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHHH
Confidence            999999985 78999999999999999999999998765543    333333333 2234443      44555666666


Q ss_pred             HhcC---------CHHHHHHHHHHH
Q 043969          196 IAAG---------ELEKAQDLFDGM  211 (300)
Q Consensus       196 ~~~~---------~~~~a~~~~~~~  211 (300)
                      .+.+         ..++-.++|++-
T Consensus       283 s~d~~~s~pk~~~~~~~L~~~~~~Q  307 (1134)
T 3spa_A          283 AKDGRVSYPKLHLPLKTLQCLFEKQ  307 (1134)
T ss_dssp             CCCSCCCCCCCSSCHHHHHHHHHHH
T ss_pred             ccCCCCcCccccCCHHHHHHHHHHH
Confidence            6655         245666666653

>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=99.84  E-value=6.8e-18  Score=143.08  Aligned_cols=266  Identities=12%  Similarity=0.008  Sum_probs=196.3

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAK   90 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (300)
                      ..|..+...+.+.|++++|++.|+++...+ +.+...|..+..++...|++++|++.|+++.+..+. +..++..+..++
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~  103 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHHH
Confidence            445556666677777777777777766653 344556777777777777777777777777665432 566666666777


Q ss_pred             HhcCCHHHHHHHHH------------------------------------------------------------------
Q 043969           91 YRLGKLDQFHRLLD------------------------------------------------------------------  104 (300)
Q Consensus        91 ~~~~~~~~a~~~~~------------------------------------------------------------------  104 (300)
                      ...|++++|...|+                                                                  
T Consensus       104 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSV  183 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTS
T ss_pred             HHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHH
Confidence            77777776666553                                                                  


Q ss_pred             -------------------------------------------HHHhCCCCCC--------HhHHHHHHHHHhcCCChHH
Q 043969          105 -------------------------------------------EMGRSGFSPD--------FHTYNILLHVLGKGDKPLA  133 (300)
Q Consensus       105 -------------------------------------------~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~  133 (300)
                                                                 .+.+.  .|+        ..++..+...+...|++++
T Consensus       184 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          184 NTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             CCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             hhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHHH
Confidence                                                       22222  122        1235555567778888999


Q ss_pred             HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      |...+++..+.  .|+...+..+...+...|++++|...++...+.. +.+..++..+...+...|++++|...++++.+
T Consensus       262 A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  338 (537)
T 3fp2_A          262 AQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS  338 (537)
T ss_dssp             HHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999988886  3457788888888999999999999999887763 33567888888999999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          214 KGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+..
T Consensus       339 ~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          339 LNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            6432 56788889999999999999999999988763 3456788888889999999999999999987654

>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=99.83  E-value=3.8e-17  Score=138.45  Aligned_cols=234  Identities=12%  Similarity=0.049  Sum_probs=182.4

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHh---------------
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQM---------------   71 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---------------   71 (300)
                      |.++.+|..+...+.+.|++++|++.+++....+ +.+..++..+..++...|++++|...|+.+               
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  134 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPML  134 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHH
Confidence            4567888888899999999999999999887764 445668888888888888888887766422               


Q ss_pred             --------------------------------------------------------------------------------
Q 043969           72 --------------------------------------------------------------------------------   71 (300)
Q Consensus        72 --------------------------------------------------------------------------------   71 (300)
                                                                                                      
T Consensus       135 ~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  214 (537)
T 3fp2_A          135 ERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVA  214 (537)
T ss_dssp             HHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHH
Confidence                                                                                            


Q ss_pred             --------------hhCCCCCC--------HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC
Q 043969           72 --------------SDEGYAPD--------ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD  129 (300)
Q Consensus        72 --------------~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (300)
                                    .+.  .|+        ..++..+...+...|++++|...++.+...  .|+...+..+...+...|
T Consensus       215 ~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~  290 (537)
T 3fp2_A          215 NDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKE  290 (537)
T ss_dssp             HHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSS
T ss_pred             HHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhc
Confidence                          111  111        123455556777889999999999999886  466788888999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          130 KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                      ++++|...++++.+.. +.+..++..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...++
T Consensus       291 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  368 (537)
T 3fp2_A          291 NSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFN  368 (537)
T ss_dssp             CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999988764 4467788888899999999999999999888763 3356678888888899999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          210 GMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       210 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ++.+... .+...+..+...+...|++++|...++++.+
T Consensus       369 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          369 ETKLKFP-TLPEVPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             HHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            8887632 3566777788888888888888888877664

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=4e-17  Score=127.32  Aligned_cols=248  Identities=14%  Similarity=0.088  Sum_probs=198.9

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC-CHhhHHHHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAP-DILTYNIVMCAK   90 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~   90 (300)
                      ....+.++|...|+++.|+..++..    -+|+..++..+...+...++.++|++.++++...+..| +...+..+...+
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~  111 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIY  111 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHH
Confidence            4456778999999999999877552    35677789999999999999999999999999876545 566677777899


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhH---HHHHHHHHhCCCHH
Q 043969           91 YRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHF---TTLMDGLSRAGNLD  167 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~  167 (300)
                      ...|++++|++.+++      +.+...+..+...+.+.|++++|.+.++++.+..  |+....   ..++..+...|+++
T Consensus       112 ~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~  183 (291)
T 3mkr_A          112 FYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQ  183 (291)
T ss_dssp             HHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHH
T ss_pred             HHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHH
Confidence            999999999999987      4688899999999999999999999999999874  443211   22334455669999


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH-HHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE-ACTMMKEM  246 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~  246 (300)
                      +|..+|+++.+. .+.+...++.+..++.+.|++++|...|++..+... -+..++..++..+...|+.++ +.++++++
T Consensus       184 eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p-~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~  261 (291)
T 3mkr_A          184 DAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS-GHPETLINLVVLSQHLGKPPEVTNRYLSQL  261 (291)
T ss_dssp             HHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            999999999887 355778899999999999999999999999988743 378899999999999999876 67899998


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043969          247 ESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVI  278 (300)
Q Consensus       247 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  278 (300)
                      .+.  .|+...   +.....+.+.++++..-|
T Consensus       262 ~~~--~P~~~~---~~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          262 KDA--HRSHPF---IKEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHH--CTTCHH---HHHHHHHHHHHHHHHHHH
T ss_pred             HHh--CCCChH---HHHHHHHHHHHHHHHHHc
Confidence            875  455433   233455666666655433

>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=99.82  E-value=1.6e-19  Score=144.78  Aligned_cols=235  Identities=14%  Similarity=0.164  Sum_probs=100.8

Q ss_pred             ccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043969           22 EVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHR  101 (300)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (300)
                      +.|+.++|.+.+++..    .|  .+|..++.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~~----~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN----EP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC----Ch--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            4567889999998872    23  48999999999999999999999652      477799999999999999999999


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC
Q 043969          102 LLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC  181 (300)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (300)
                      +++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|.+++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            88877764  4567888999999999999999887774       367779999999999999999999999966     


Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          182 MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTL  261 (300)
Q Consensus       182 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  261 (300)
                          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......     +...+.-...+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHH
Confidence                47999999999999999999999988      2789999999999999999999655443     22233445578


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC-----hHHHHHHHhhhh
Q 043969          262 VSNLRNAGKLAEAHEVIRHMVEKG-----KYIHLVSKFKRY  297 (300)
Q Consensus       262 i~~~~~~g~~~~a~~~~~~~~~~~-----~~~~l~~~~~~~  297 (300)
                      +..|.+.|++++|..+++..+...     .|..+.-++++|
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky  254 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF  254 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhc
Confidence            889999999999999999998654     566665555554

>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=99.81  E-value=1.8e-17  Score=131.39  Aligned_cols=235  Identities=9%  Similarity=-0.019  Sum_probs=197.0

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ...+..+...+...|++++|..+|+++.+..+. +...+..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   98 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   98 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHH
Confidence            346778888999999999999999999987543 77888899999999999999999999998874 5578889999999


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHH--------------HH-HHHhCCCHHHHHHHHHHHHhCCCCCccccHH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTL--------------MD-GLSRAGNLDACKYFFDEMANKGCMPDVVCYT  189 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (300)
                      +...|++++|.+.++++.+.. +.+...+..+              .. .+...|++++|...++.+.+.. +.+...+.
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  176 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHA  176 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHH
Confidence            999999999999999998863 2233333333              22 3778899999999999998764 33677889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 043969          190 VMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAG  269 (300)
Q Consensus       190 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  269 (300)
                      .+...+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g  254 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMS  254 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhc
Confidence            999999999999999999999988643 368899999999999999999999999998863 346788899999999999


Q ss_pred             CHHHHHHHHHHHHHcC
Q 043969          270 KLAEAHEVIRHMVEKG  285 (300)
Q Consensus       270 ~~~~a~~~~~~~~~~~  285 (300)
                      ++++|.+.++++.+..
T Consensus       255 ~~~~A~~~~~~a~~~~  270 (327)
T 3cv0_A          255 QYDLAAKQLVRAIYMQ  270 (327)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhC
Confidence            9999999999987644

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=4.9e-17  Score=124.46  Aligned_cols=224  Identities=14%  Similarity=0.076  Sum_probs=113.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----HhHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF--SPD----FHTYNI  120 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~  120 (300)
                      .|..+...+...|++++|...|+++.+..  .+..++..+..++...|++++|...+++..+...  .++    ..++..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            44444555555555555555555555443  3444555555555555555555555555433210  001    344455


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE  200 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  200 (300)
                      +...+...|++++|...+++..+..  |+.       ..+...|++++|...++...... +.+...+..+...+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            5555555555555555555555432  221       22334455555555555555431 1233445555555555566


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          201 LEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRH  280 (300)
Q Consensus       201 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  280 (300)
                      +++|...+++..+... .+..++..+..++...|++++|...+++..+.. +.+...+..+..++...|++++|.+.+++
T Consensus       155 ~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            6666666655555422 245555555556666666666666666555532 22345555555556666666666666655


Q ss_pred             HHHc
Q 043969          281 MVEK  284 (300)
Q Consensus       281 ~~~~  284 (300)
                      ..+.
T Consensus       233 a~~~  236 (258)
T 3uq3_A          233 ARTK  236 (258)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=3.3e-17  Score=122.33  Aligned_cols=113  Identities=15%  Similarity=0.093  Sum_probs=41.3

Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM  243 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (300)
                      |++++|...++...+.. +-+...+..+..++...|++++|+..|++..+..  .+...+..+..++...|++++|...+
T Consensus        98 g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~  174 (217)
T 2pl2_A           98 GYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQY  174 (217)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44444444444443331 1123333444444444444444444444444433  24444444444444444444444444


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          244 KEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRH  280 (300)
Q Consensus       244 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  280 (300)
                      ++..+.. +.+...+..+..++...|++++|.+.+++
T Consensus       175 ~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          175 AKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHS-TTCHHHHHHHHHHHTC-------------
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            4444321 11233344444444444444444444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=2.3e-17  Score=123.22  Aligned_cols=198  Identities=11%  Similarity=0.053  Sum_probs=111.2

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +...+..+...+.+.|++++|...|++..+..+. +...+..+...+.+.|++++|+..+++..+.. |.+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            3344555555555555555555555555554322 44555555555555555555555555555443 233445555555


Q ss_pred             HHhcC-----------CChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHH
Q 043969          124 VLGKG-----------DKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMI  192 (300)
Q Consensus       124 ~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (300)
                      ++...           |++++|+..+++..+.. |.+...+..+..++...|++++|...|++..+..  .+...+..+.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            55555           77777777777776653 3345566666677777777777777777776665  4566677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          193 TSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      .++...|++++|+..|++..+... .+...+..+...+...|++++|...+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            777777777777777777766532 256667777777777777777777776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=8.8e-17  Score=123.04  Aligned_cols=227  Identities=11%  Similarity=0.012  Sum_probs=194.7

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCC--CC----Hhh
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYA--PD----ILT   82 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~   82 (300)
                      ....|..+...+...|++++|++.+++.....  .+...|..+...+...|++++|...+++..+....  ++    ..+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            35678888999999999999999999998876  77779999999999999999999999999875322  12    578


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR  162 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (300)
                      +..+...+...|++++|...+++....  .|+..       .+...|++++|...++.+.... +.+...+..+...+..
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHH
Confidence            888999999999999999999999886  35533       4556688999999999998863 3456778889999999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 043969          163 AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                      .|++++|...++...+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++...|++++|...
T Consensus       152 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  229 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALET  229 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999998764 3467789999999999999999999999998874 33688899999999999999999999


Q ss_pred             HHHHHHC
Q 043969          243 MKEMESR  249 (300)
Q Consensus       243 ~~~~~~~  249 (300)
                      +++..+.
T Consensus       230 ~~~a~~~  236 (258)
T 3uq3_A          230 LDAARTK  236 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998864

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=1.9e-17  Score=128.13  Aligned_cols=250  Identities=10%  Similarity=-0.074  Sum_probs=194.9

Q ss_pred             HhhccccHHHHHHHHHHhhhcCC--C-cCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043969           19 TCGEVGLARKVVERFIKSKLFNF--R-PFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK   95 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~--~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (300)
                      .....+++++|++.++++.....  + .+..+|..+...+...|++++|...|+++.+..+. +..++..+...+...|+
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~   92 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGN   92 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTC
T ss_pred             ccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccC
Confidence            44567899999999999877532  1 23458899999999999999999999999987533 78899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHH
Q 043969           96 LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDE  175 (300)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (300)
                      +++|...++++.... +.+..++..+...+...|++++|...++++.+..  |+.......+..+...|++++|...++.
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            999999999998874 4567889999999999999999999999998863  4444444455566777999999999988


Q ss_pred             HHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 043969          176 MANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP---NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN  252 (300)
Q Consensus       176 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (300)
                      ..... +++... ..++..+...++.++|...+.+..+.....   +..++..+...|...|++++|...+++..+.  .
T Consensus       170 ~~~~~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~  245 (275)
T 1xnf_A          170 HFEKS-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--N  245 (275)
T ss_dssp             HHHHS-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C
T ss_pred             HHhcC-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--C
Confidence            77652 333333 447777788889999999999887642210   1578889999999999999999999999975  3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043969          253 PNFLVYNTLVSNLRNAGKLAEAHEVI  278 (300)
Q Consensus       253 ~~~~~~~~li~~~~~~g~~~~a~~~~  278 (300)
                      |+.  +.....++...|++++|++.+
T Consensus       246 p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          246 VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            432  223355677888999888766

>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=99.78  E-value=3.1e-15  Score=115.72  Aligned_cols=222  Identities=11%  Similarity=0.017  Sum_probs=139.7

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNIL  121 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (300)
                      .++..+...+...|++++|.+.|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+..+
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l   80 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   80 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            355555566666666666666666666532   34555556666666    666666666666666553   45556666


Q ss_pred             HHHHhc----CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh----CCCHHHHHHHHHHHHhCCCCCccccHHHHHH
Q 043969          122 LHVLGK----GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR----AGNLDACKYFFDEMANKGCMPDVVCYTVMIT  193 (300)
Q Consensus       122 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  193 (300)
                      ...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|+...+.+   +...+..+..
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            666666    666666666666666653   45556666666666    666777777766666654   3445555666


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          194 SYIA----AGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM----AGKFDEACTMMKEMESRGCNPNFLVYNTLVSNL  265 (300)
Q Consensus       194 ~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  265 (300)
                      .+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+...|
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~  228 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQ  228 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHH
Confidence            6665    667777777777766653   45566666666666    677777777777766653   245556666666


Q ss_pred             Hh----cCCHHHHHHHHHHHHHcC
Q 043969          266 RN----AGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       266 ~~----~g~~~~a~~~~~~~~~~~  285 (300)
                      ..    .+++++|.+.+++..+.|
T Consensus       229 ~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          229 YNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HcCCCcccCHHHHHHHHHHHHHcC
Confidence            66    677777777777777666

>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=99.77  E-value=4.5e-18  Score=136.39  Aligned_cols=235  Identities=14%  Similarity=0.134  Sum_probs=108.6

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      +++.+|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|+.+++...+.  .+++.+.+.++
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li  101 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHH
Confidence            44569999999999999999999999763      56669999999999999999999988777664  44678889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      .+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..++.++.+.|+++
T Consensus       102 ~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A          102 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             -------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHH
T ss_pred             HHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHH
Confidence            99999999999988874       377789999999999999999999999976         47899999999999999


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      +|.+.+..+      .++.+|..++.+|...|+++.|......+.     .++.-...++..|.+.|++++|..+++...
T Consensus       166 ~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          166 AAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999988      277899999999999999999966555432     244445578899999999999999999887


Q ss_pred             HCCCCCCHHHHHHHHHHHHhc--CCHHHHHHHH
Q 043969          248 SRGCNPNFLVYNTLVSNLRNA--GKLAEAHEVI  278 (300)
Q Consensus       248 ~~~~~~~~~~~~~li~~~~~~--g~~~~a~~~~  278 (300)
                      ... +-....|..+..+|++-  ++..+.++.|
T Consensus       235 ~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          235 GLE-RAHMGMFTELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             TST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            653 33455666665555443  4455555444

>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=99.76  E-value=4.8e-15  Score=114.62  Aligned_cols=225  Identities=9%  Similarity=-0.078  Sum_probs=197.4

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCHhhH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG----IRQYKLIEWVYQQMSDEGYAPDILTY   83 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (300)
                      -++.++..+...+...|++++|++.|.+....   -+...+..+...+..    .+++++|...|++..+.+   +...+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            36677888889999999999999999998773   344578889999999    999999999999999886   67888


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCcHhhHHH
Q 043969           84 NIVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK----GDKPLAALNLLNHMKEVGFDPSVLHFTT  155 (300)
Q Consensus        84 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (300)
                      ..+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|+..+++..+.+   +...+..
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            889999999    999999999999998875   77888899999998    999999999999999875   5567778


Q ss_pred             HHHHHHh----CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          156 LMDGLSR----AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA----AGELEKAQDLFDGMITKGQLPNVFTYNSMI  227 (300)
Q Consensus       156 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  227 (300)
                      +...|..    .+++++|...|+...+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+.
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~  225 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  225 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            8888888    999999999999998874   55778888899999    999999999999999874   367888889


Q ss_pred             HHHhc----cCCHHHHHHHHHHHHHCC
Q 043969          228 RGFCM----AGKFDEACTMMKEMESRG  250 (300)
Q Consensus       228 ~~~~~----~~~~~~a~~~~~~~~~~~  250 (300)
                      ..|..    .+++++|.+.+++..+.|
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            99998    999999999999999875

>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=99.76  E-value=1.8e-15  Score=115.49  Aligned_cols=200  Identities=12%  Similarity=-0.047  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      ..|..+...+...|++++|...|+++.+... .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDP-SSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            3566666677777777777777777766532 255666666677777777777777777666553 33555666666666


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKA  204 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  204 (300)
                      ...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHH
Confidence            66777777777776666522222 34555666666666666666666666665542 22345566666666666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          205 QDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...++++.+.. +.+...+..+...+...|++++|.+.++++.+.
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            66666665542 234555666666666666666666666666654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.75  E-value=6.9e-16  Score=119.15  Aligned_cols=234  Identities=11%  Similarity=0.054  Sum_probs=127.4

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HhHHHHHHHHH
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD--FHTYNILLHVL  125 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~  125 (300)
                      +......+...|++++|+..|++..+..+. +...+..+...+...|++++|...+++.......++  ...|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            344455555666666666666666555322 344555555566666666666666666655221111  12255556666


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQ  205 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  205 (300)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+...+...+++++|.
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666665542 2344556666666666666666666666665541 223344444442333344666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCC---HHHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHhcCCHHHHH
Q 043969          206 DLFDGMITKGQLPNVFTYNSMIRGFCMAGK---FDEACTMMKEMESRG-CNPN------FLVYNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~~~a~  275 (300)
                      ..|+++.+... .+...+..+..++...|+   +++|...+++..+.. -.|+      ...+..+...|...|++++|.
T Consensus       163 ~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          163 SSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            66666665422 235555555666665555   555666666555421 1122      134555666666667777777


Q ss_pred             HHHHHHHHcC
Q 043969          276 EVIRHMVEKG  285 (300)
Q Consensus       276 ~~~~~~~~~~  285 (300)
                      +.++++.+..
T Consensus       242 ~~~~~al~~~  251 (272)
T 3u4t_A          242 AAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhcC
Confidence            7776666554

>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=99.75  E-value=1.6e-15  Score=115.70  Aligned_cols=202  Identities=9%  Similarity=-0.045  Sum_probs=176.1

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+.. +.+...+..+...
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            5678888889999999999999999998764 4578889999999999999999999999998874 4467888999999


Q ss_pred             HHhCCCHHHHHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH
Q 043969          160 LSRAGNLDACKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE  238 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (300)
                      +...|++++|...++.+.+.+..| +...+..+...+...|++++|...+++..+... .+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998732334 566788889999999999999999999988643 368889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          239 ACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      |...++++.+.. +.+...+..+...+...|+.++|.++++++.+..
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999998753 4567788888899999999999999999998876

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.75  E-value=3.1e-15  Score=111.90  Aligned_cols=200  Identities=9%  Similarity=0.011  Sum_probs=117.8

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      ..+..+...+...|++++|.+.++++.+... .+...+..+...+...|++++|...++++.... +.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            3556666666666666666666666665432 245566666666666666666666666665543 33455566666666


Q ss_pred             hcC-CChHHHHHHHHHHHHcCCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHH
Q 043969          126 GKG-DKPLAALNLLNHMKEVGFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEK  203 (300)
Q Consensus       126 ~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  203 (300)
                      ... |++++|...++++.+.+..| +...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHH
Confidence            666 66666666666666521122 23455566666666666666666666665542 2234555566666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          204 AQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      |...++++.+.....+...+..+...+...|+.++|..+++.+.+
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            666666665543213455555555666666666666666666554

>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=99.74  E-value=1.7e-15  Score=122.09  Aligned_cols=242  Identities=10%  Similarity=0.053  Sum_probs=188.0

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK-LDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ..|..+...+...|++++|+..++++++..+. +..+|+.+..++...|+ +++|+..++++.... +-+...|..+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            36778888888889999999999998887543 67788888888888886 999999999888775 4467788888888


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh-cCCHHH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA-AGELEK  203 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~  203 (300)
                      +...|++++|+..|+++.+.. +-+...|..+..++...|++++|+..++.+.+.. +-+...|+.+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchH
Confidence            888999999999999988874 4467788888888889999999999999888764 2366788888888888 555466


Q ss_pred             H-----HHHHHHHHHCCCCCCHHHHHHHHHHHhccC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-------
Q 043969          204 A-----QDLFDGMITKGQLPNVFTYNSMIRGFCMAG--KFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAG-------  269 (300)
Q Consensus       204 a-----~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-------  269 (300)
                      |     +..+++..+.... +...|..+...+...|  ++++|.+.+.++ +. .+.+...+..+...|.+.|       
T Consensus       254 A~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccch
Confidence            6     5778887776433 6778888888888877  688888888887 32 2345677788888887764       


Q ss_pred             --CHHHHHHHHHHH-HHcC-----hHHHHHHHh
Q 043969          270 --KLAEAHEVIRHM-VEKG-----KYIHLVSKF  294 (300)
Q Consensus       270 --~~~~a~~~~~~~-~~~~-----~~~~l~~~~  294 (300)
                        ..++|.++++++ .+.+     .|..+...+
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence              358899999998 6655     555444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.74  E-value=4.3e-15  Score=111.18  Aligned_cols=204  Identities=10%  Similarity=-0.032  Sum_probs=175.4

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      +...+..+...+...|++++|.+.++.+.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..
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            56778888999999999999999999998764 4567889999999999999999999999998874 456778899999


Q ss_pred             HHHhC-CCHHHHHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH
Q 043969          159 GLSRA-GNLDACKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF  236 (300)
Q Consensus       159 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  236 (300)
                      .+... |++++|...++.+.+.+..| +...+..+..++...|++++|...++++.+... .+...+..+...+...|++
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 99999999999998732233 356788899999999999999999999988643 3688899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          237 DEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ++|...+++..+.....+...+..+...+...|+.+.|..+++.+.+..
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            9999999999886321467778888888899999999999999998655

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.74  E-value=1.2e-15  Score=117.85  Aligned_cols=225  Identities=11%  Similarity=-0.042  Sum_probs=184.0

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           55 LLGIRQYKLIEWVYQQMSDEGYA---PDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ....|++++|+..++++.+....   .+..++..+...+...|++++|...++++.+.. +.+..++..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            34568899999999999986421   246678888999999999999999999998875 45788999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          132 LAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGM  211 (300)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  211 (300)
                      ++|...+++..+.. +.+...+..+...+...|++++|...++.+.+.  .|+.......+..+...|++++|...+.+.
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999999873 446788999999999999999999999999876  455555555556667789999999999888


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          212 ITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN--P-NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       212 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .... +++...+. ++..+...++.++|...+++..+....  | +...+..+...+...|++++|...++++++.+
T Consensus       171 ~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            7753 33444444 777788888999999999988764211  1 15778889999999999999999999999876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.74  E-value=7.8e-16  Score=118.86  Aligned_cols=249  Identities=9%  Similarity=-0.054  Sum_probs=194.5

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--HhhHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD--ILTYNIVM   87 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~   87 (300)
                      +..+......+...|++++|++.+++..... +.+...+..+...+...|++++|.+.++++.+.+..|+  ...|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            3455667788889999999999999988764 33444888999999999999999999999998532222  23488889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      ..+...|++++|...+++..+.. +.+..++..+...+...|++++|...+++..+. .+.+...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998875 456788999999999999999999999999886 3446667777773444456999


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC---HHHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHhccCCHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE---LEKAQDLFDGMITKG-QLPN------VFTYNSMIRGFCMAGKFD  237 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~-~~p~------~~~~~~l~~~~~~~~~~~  237 (300)
                      +|...|+...+.. +.+...+..+..++...|+   +++|...+++..+.. ..|+      ..+|..+...|...|+++
T Consensus       160 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          160 KADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999998863 2346677778888888888   888998888877641 1133      257888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          238 EACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      +|.+.+++..+.. +-+......+..
T Consensus       239 ~A~~~~~~al~~~-p~~~~a~~~l~~  263 (272)
T 3u4t_A          239 KADAAWKNILALD-PTNKKAIDGLKM  263 (272)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHC-
T ss_pred             HHHHHHHHHHhcC-ccHHHHHHHhhh
Confidence            9999999999863 223444444433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.73  E-value=6.7e-16  Score=117.11  Aligned_cols=200  Identities=11%  Similarity=0.036  Sum_probs=126.1

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ...|..+...+...|++++|...|+++.+.... +...+..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            335666777777777888888777777765422 56677777777777788888888777776653 3456667777777


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKA  204 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  204 (300)
                      +...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777777653 3455666777777777777777777777776552 23455666677777777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          205 QDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...++++.+... .+..++..+..+|...|++++|...++++.+.
T Consensus       179 ~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            777777766532 35666777777777777777777777777664

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.73  E-value=5.9e-16  Score=117.42  Aligned_cols=213  Identities=16%  Similarity=0.106  Sum_probs=163.9

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      .+...|..+...+...|++++|.+.|++..... +.+...+..+...+...|++++|...++++.+.... +...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHH
Confidence            345667778888899999999999999987753 445678999999999999999999999999887533 788899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      ..+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999998775 5578889999999999999999999999998873 456778889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSM  226 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  226 (300)
                      +|...++...+.. +.+..++..+..++...|++++|...++++.+.... +...+..+
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~  233 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD-HMLALHAK  233 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc-hHHHHHHH
Confidence            9999999988763 345778899999999999999999999999886432 44444433

>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=99.72  E-value=4.6e-15  Score=119.63  Aligned_cols=248  Identities=6%  Similarity=-0.001  Sum_probs=203.6

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCc-HHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ-YKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      ...|..+...+.+.|++++|++.+++....+ +-+...|+.+..++...|+ +++|+..|+++++..+. +...|..+..
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-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
Confidence            4567888888899999999999999988874 3456689999999999997 99999999999998654 7889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHh-CCCHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSR-AGNLD  167 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  167 (300)
                      ++...|++++|+..++++.+.. +-+...|..+..++.+.|++++|+..++++.+.. +-+...|+.+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999998875 5578899999999999999999999999999974 4477889999999998 66657


Q ss_pred             HH-----HHHHHHHHhCCCCCccccHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC------
Q 043969          168 AC-----KYFFDEMANKGCMPDVVCYTVMITSYIAAG--ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAG------  234 (300)
Q Consensus       168 ~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~------  234 (300)
                      +|     +..++...... +-+...|..+...+...|  ++++|++.+.++ +. ...+...+..+..+|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccc
Confidence            77     47788887753 235678888888888888  689999999988 43 3346788889999998874      


Q ss_pred             ---CHHHHHHHHHHH-HHCCCCCCH-HHHHHHHHHHH
Q 043969          235 ---KFDEACTMMKEM-ESRGCNPNF-LVYNTLVSNLR  266 (300)
Q Consensus       235 ---~~~~a~~~~~~~-~~~~~~~~~-~~~~~li~~~~  266 (300)
                         ..++|.++++++ .+.  .|.. ..|..+...+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEK--DTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHH
Confidence               358999999998 553  4544 44555555443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.72  E-value=4.9e-13  Score=112.13  Aligned_cols=256  Identities=12%  Similarity=0.020  Sum_probs=173.4

Q ss_pred             chHHHHHHHHHhhc----cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCH
Q 043969            9 TARTFNILICTCGE----VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG----IRQYKLIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         9 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   80 (300)
                      ++..+..+...|..    .+++++|+++|.+....+   +...+..+...+..    .+++++|.+.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            44555556666655    678888888888776643   34466777777777    778888888888887765   55


Q ss_pred             hhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCcHhh
Q 043969           81 LTYNIVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK----GDKPLAALNLLNHMKEVGFDPSVLH  152 (300)
Q Consensus        81 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  152 (300)
                      ..+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++|++.|++..+.+   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            666667777776    678888888888877664   45666666666665    677888888888777754   4566


Q ss_pred             HHHHHHHHHh----CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 043969          153 FTTLMDGLSR----AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA----AGELEKAQDLFDGMITKGQLPNVFTYN  224 (300)
Q Consensus       153 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~  224 (300)
                      +..+...|..    .++.++|...|+...+.+   +...+..+...|..    .+++++|..+|++..+.+   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6666667766    677777777777776654   44556666666665    667777777777776653   445555


Q ss_pred             HHHHHHhc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcC
Q 043969          225 SMIRGFCM----AGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNA-----GKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       225 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~  285 (300)
                      .+...|..    .+++++|...+++..+.|   +...+..+...|...     ++.++|...+++..+.|
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~  326 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG  326 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC
Confidence            56666655    667777777777766543   344555555666555     67777777777776665

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.71  E-value=4.4e-13  Score=112.42  Aligned_cols=258  Identities=11%  Similarity=0.051  Sum_probs=130.6

Q ss_pred             hHHHHHHHHHhhc----cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCHh
Q 043969           10 ARTFNILICTCGE----VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG----IRQYKLIEWVYQQMSDEGYAPDIL   81 (300)
Q Consensus        10 ~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~   81 (300)
                      +..+..|...|..    .++.++|+++|++....+   +...+..+...+..    .+++++|...|++..+.|   +..
T Consensus        75 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~  148 (490)
T 2xm6_A           75 TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDS  148 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            3444445555554    566666666666655433   33344555555555    556666666666665554   344


Q ss_pred             hHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           82 TYNIVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK----GDKPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        82 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      .+..+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|++..+.+   +...+
T Consensus       149 a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  222 (490)
T 2xm6_A          149 GQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQ  222 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHH
Confidence            55555555554    456666666666655543   44455555555544    555555555555555443   23334


Q ss_pred             HHHHHHHHh----CCCHHHHHHHHHHHHhCCCC---------------------------------CccccHHHHHHHHH
Q 043969          154 TTLMDGLSR----AGNLDACKYFFDEMANKGCM---------------------------------PDVVCYTVMITSYI  196 (300)
Q Consensus       154 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~---------------------------------~~~~~~~~li~~~~  196 (300)
                      ..+...|..    .+++++|...|+...+.+..                                 -+...+..+...|.
T Consensus       223 ~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~  302 (490)
T 2xm6_A          223 LHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYD  302 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444443    44455555555444443210                                 02233334444444


Q ss_pred             hc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-
Q 043969          197 AA-----GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAG---KFDEACTMMKEMESRGCNPNFLVYNTLVSNLRN-  267 (300)
Q Consensus       197 ~~-----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-  267 (300)
                      ..     +++++|...|++..+.+   +...+..+...|...|   ++++|.+.+++..+.|   +...+..+...|.. 
T Consensus       303 ~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g  376 (490)
T 2xm6_A          303 KGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQG  376 (490)
T ss_dssp             HCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             cCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence            43     45555555555544442   3334444444444433   4555555555555442   34445555555555 


Q ss_pred             ---cCCHHHHHHHHHHHHHcC
Q 043969          268 ---AGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       268 ---~g~~~~a~~~~~~~~~~~  285 (300)
                         .+++++|.+.|++..+.|
T Consensus       377 ~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          377 KGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHHhCC
Confidence               556666666666665555

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.71  E-value=1.2e-15  Score=124.65  Aligned_cols=277  Identities=13%  Similarity=0.036  Sum_probs=211.2

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC----HHHHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPF----KNSYNAILHALLGIRQYKLIEWVYQQMSDE----GYAP   78 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~   78 (300)
                      .+....+......+...|++++|...|++....+. .+    ...|..+...+...|++++|...+++..+.    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            34556677778889999999999999999887642 22    347888999999999999999999987643    2122


Q ss_pred             -CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HhHHHHHHHHHhcCCC--------------------hH
Q 043969           79 -DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPD----FHTYNILLHVLGKGDK--------------------PL  132 (300)
Q Consensus        79 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~  132 (300)
                       ...++..+...+...|++++|...+++...... .++    ..++..+...+...|+                    ++
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             255677888899999999999999988754310 011    3477888888999999                    99


Q ss_pred             HHHHHHHHHHHc----CCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC-CCc----cccHHHHHHHHHhcCCHH
Q 043969          133 AALNLLNHMKEV----GFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC-MPD----VVCYTVMITSYIAAGELE  202 (300)
Q Consensus       133 ~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~~~  202 (300)
                      +|...+++..+.    +..+ ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+++
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            999998876542    1111 235678888999999999999999998865310 111    237888899999999999


Q ss_pred             HHHHHHHHHHHCCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHH
Q 043969          203 KAQDLFDGMITKGQL-PN----VFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNP-NFLVYNTLVSNLRNAGKLA  272 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~  272 (300)
                      +|...+++..+.... ++    ..++..+...|...|++++|...+++..+.    +..+ ...++..+...|...|+++
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            999999987653110 11    567888999999999999999999988753    1111 1457778888999999999


Q ss_pred             HHHHHHHHHHHc
Q 043969          273 EAHEVIRHMVEK  284 (300)
Q Consensus       273 ~a~~~~~~~~~~  284 (300)
                      +|.+.+++..+.
T Consensus       325 ~A~~~~~~al~~  336 (406)
T 3sf4_A          325 QAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.71  E-value=4.9e-16  Score=127.31  Aligned_cols=274  Identities=12%  Similarity=0.001  Sum_probs=209.7

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCH----HHHHHHHHHHHccCcHHHHHHHHHHhhhC----CC-CCCHh
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPFK----NSYNAILHALLGIRQYKLIEWVYQQMSDE----GY-APDIL   81 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~   81 (300)
                      ..+..+...+...|++++|+..+++....+. .+.    ..|..+...+...|++++|...+++..+.    +. +....
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            3445566778889999999999999887642 222    47888999999999999999999988753    11 22456


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CCCCHhHHHHHHHHHhcCCC-----------------hHHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRS----G-FSPDFHTYNILLHVLGKGDK-----------------PLAALNLLN  139 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  139 (300)
                      ++..+...+...|++++|...+++....    + .+....++..+...+...|+                 +++|...++
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            7788889999999999999999887543    1 11234577888889999999                 999999988


Q ss_pred             HHHHc----CC-CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC-Cc----cccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          140 HMKEV----GF-DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCM-PD----VVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       140 ~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                      +..+.    +. +.....+..+...+...|++++|...+++..+.... ++    ...+..+...+...|++++|...++
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            86542    11 112357788889999999999999999988654110 11    2378888999999999999999999


Q ss_pred             HHHHCCCC-----CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043969          210 GMITKGQL-----PNVFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCN-PNFLVYNTLVSNLRNAGKLAEAHEVIR  279 (300)
Q Consensus       210 ~~~~~~~~-----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~  279 (300)
                      +..+....     ....++..+...+...|++++|...+++..+.    +.. ....++..+...|...|++++|.+.++
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            87754110     12567888999999999999999999988753    111 113477788889999999999999999


Q ss_pred             HHHHcC
Q 043969          280 HMVEKG  285 (300)
Q Consensus       280 ~~~~~~  285 (300)
                      +..+..
T Consensus       368 ~al~~~  373 (411)
T 4a1s_A          368 QHLQLA  373 (411)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            998765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.69  E-value=9.1e-16  Score=121.82  Aligned_cols=273  Identities=13%  Similarity=0.033  Sum_probs=206.5

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC----HHHHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHh
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPF----KNSYNAILHALLGIRQYKLIEWVYQQMSDE----GYAP-DIL   81 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~   81 (300)
                      ..+......+...|++++|...+++....+. .+    ...+..+...+...|++++|.+.+++..+.    +..| ...
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            3455566778889999999999999887642 22    357888999999999999999999887653    2121 355


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HhHHHHHHHHHhcCCC--------------------hHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPD----FHTYNILLHVLGKGDK--------------------PLAALN  136 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~  136 (300)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|..
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            778888899999999999999988754310 112    3377788888999999                    999999


Q ss_pred             HHHHHHHc----CCC-CcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCC----C-CCccccHHHHHHHHHhcCCHHHHHH
Q 043969          137 LLNHMKEV----GFD-PSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG----C-MPDVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       137 ~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      .+++....    +.. .....+..+...+...|++++|...++...+..    . .....++..+...+...|++++|..
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            98876542    111 123467788889999999999999999876431    1 1112378888899999999999999


Q ss_pred             HHHHHHHCCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHH
Q 043969          207 LFDGMITKGQL-PN----VFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCN-PNFLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       207 ~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      .+++..+.... ++    ..++..+...+...|++++|...+++..+.    +.. ....++..+...|...|++++|.+
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            99987653111 11    567888899999999999999999988753    111 113467788889999999999999


Q ss_pred             HHHHHHHc
Q 043969          277 VIRHMVEK  284 (300)
Q Consensus       277 ~~~~~~~~  284 (300)
                      .+++..+.
T Consensus       325 ~~~~a~~~  332 (338)
T 3ro2_A          325 FAEKHLEI  332 (338)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            99998864

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.68  E-value=3.1e-13  Score=106.36  Aligned_cols=184  Identities=11%  Similarity=0.077  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-Hh-hHHHHHHHHHhCCCHHHHHHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS-VL-HFTTLMDGLSRAGNLDACKYFFD  174 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~  174 (300)
                      ++|..+|++....-.+.+...|..+...+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|+
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  158 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            555555555554211223345555555555555555555555555543  222 22 45555555555555555555555


Q ss_pred             HHHhCCCCCccccHHHHHHHHH-hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CC
Q 043969          175 EMANKGCMPDVVCYTVMITSYI-AAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-CN  252 (300)
Q Consensus       175 ~~~~~~~~~~~~~~~~li~~~~-~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~  252 (300)
                      ...+.. +++...|........ ..|++++|..+|++..+... -+...|..++..+.+.|++++|..+|++..... ++
T Consensus       159 ~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~  236 (308)
T 2ond_A          159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCC
Confidence            555432 122222322222111 14566666666655554421 245555555555555666666666666655542 23


Q ss_pred             C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          253 P--NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       253 ~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      |  ....|..++....+.|+.+.|..+++++.+.
T Consensus       237 p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3  2344555555555556666666666555543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.64  E-value=2.5e-14  Score=119.23  Aligned_cols=216  Identities=9%  Similarity=-0.068  Sum_probs=145.5

Q ss_pred             cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH-HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHH
Q 043969           60 QYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL-DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLL  138 (300)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  138 (300)
                      .++++...+++..... +.+...+..+...+...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|.+.|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3556666666655442 23566677777777777777 77777777776653 334667777777777777777777777


Q ss_pred             HHHHHcCCCCcHhhHHHHHHHHHhC---------CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc--------CCH
Q 043969          139 NHMKEVGFDPSVLHFTTLMDGLSRA---------GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA--------GEL  201 (300)
Q Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------~~~  201 (300)
                      ++..+.  .|+...+..+...+...         |++++|...+++..+.. +.+...|..+..++...        |++
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            777765  34556667777777777         77777777777776653 23456677777777776        777


Q ss_pred             HHHHHHHHHHHHCCCC--CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 043969          202 EKAQDLFDGMITKGQL--PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIR  279 (300)
Q Consensus       202 ~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  279 (300)
                      ++|+..|++..+....  -+...|..+..+|...|++++|.+.|++..+.. +.+...+..+..++...|++++|.+.+.
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            7777777777764220  266777777777777777777777777777642 2244566667777777777777776655


Q ss_pred             HH
Q 043969          280 HM  281 (300)
Q Consensus       280 ~~  281 (300)
                      ++
T Consensus       317 ~~  318 (474)
T 4abn_A          317 KT  318 (474)
T ss_dssp             TC
T ss_pred             cc
Confidence            54

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=5.3e-13  Score=111.28  Aligned_cols=273  Identities=11%  Similarity=0.023  Sum_probs=174.7

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhc-------CCCc-CHHHHHHHHHHHHccCcHHHHHHHHHHhhhC----
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLF-------NFRP-FKNSYNAILHALLGIRQYKLIEWVYQQMSDE----   74 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----   74 (300)
                      +.....||.|...+...|+.++|++.|.+....       ...| ...+|+.+..+|...|++++|...+++..+.    
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            334667999999999999999999999876442       1123 3458999999999999999999999887652    


Q ss_pred             -C-CC-CCHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH---HhcCCChHHHHHHHHHHHHcCC
Q 043969           75 -G-YA-PDILTYNIVMCAKYRL--GKLDQFHRLLDEMGRSGFSPDFHTYNILLHV---LGKGDKPLAALNLLNHMKEVGF  146 (300)
Q Consensus        75 -~-~~-~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~  146 (300)
                       + .. ....++.....++...  +++++|+..|++..+.. |.++..+..+..+   +...++.++|++.+++..+.. 
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence             1 11 1345666665555554  46899999999988764 3345555554444   445677788888888877763 


Q ss_pred             CCcHhhHHHHHHHHHh----CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 043969          147 DPSVLHFTTLMDGLSR----AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFT  222 (300)
Q Consensus       147 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  222 (300)
                      +.+...+..+...+..    .++.++|...++...... +.+...+..+...+...|++++|...+++..+.... +..+
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  283 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYL  283 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHH
Confidence            3345555555444433    456778888888777653 335567778888888888888888888887765322 4455


Q ss_pred             HHHHHHHHhcc-------------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          223 YNSMIRGFCMA-------------------GKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       223 ~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +..+..+|...                   +.+++|...+++..+.. +.+...+..+...+...|++++|.+.|++.++
T Consensus       284 ~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~  362 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFS  362 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHh
Confidence            55444443221                   12344555555555431 22334455555666666666666666666655


Q ss_pred             c
Q 043969          284 K  284 (300)
Q Consensus       284 ~  284 (300)
                      .
T Consensus       363 ~  363 (472)
T 4g1t_A          363 K  363 (472)
T ss_dssp             S
T ss_pred             c
Confidence            4

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.64  E-value=7.1e-13  Score=104.29  Aligned_cols=235  Identities=10%  Similarity=0.001  Sum_probs=183.7

Q ss_pred             hHHHHHHHHHhhcc----ccH----HHHHHHHHHhhhcCCCcCHHHHHHHHHHHH-------ccCcH-------HHHHHH
Q 043969           10 ARTFNILICTCGEV----GLA----RKVVERFIKSKLFNFRPFKNSYNAILHALL-------GIRQY-------KLIEWV   67 (300)
Q Consensus        10 ~~~~~~ll~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~   67 (300)
                      ...|...+....+.    ++.    ++|...|++..... +-+...|..++..+.       +.|++       ++|..+
T Consensus         8 ~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~   86 (308)
T 2ond_A            8 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI   86 (308)
T ss_dssp             HHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHH
Confidence            34566666554432    233    68889999987753 445568888877765       35775       899999


Q ss_pred             HHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-Hh-HHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 043969           68 YQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD-FH-TYNILLHVLGKGDKPLAALNLLNHMKEVG  145 (300)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (300)
                      |++..+.-.+-+...|..++..+.+.|++++|..+|+++.+.  .|+ .. +|..+...+.+.|++++|..+|++..+..
T Consensus        87 ~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           87 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA  164 (308)
T ss_dssp             HHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999998311236778999999999999999999999999885  454 44 79999999999999999999999998864


Q ss_pred             CCCcHhhHHHHHHHH-HhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC--CHH
Q 043969          146 FDPSVLHFTTLMDGL-SRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG-QLP--NVF  221 (300)
Q Consensus       146 ~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p--~~~  221 (300)
                       +.+...|....... ...|++++|..+|+...+.. +.+...|..++..+.+.|++++|..+|++..+.. ..|  ...
T Consensus       165 -p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~  242 (308)
T 2ond_A          165 -RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGE  242 (308)
T ss_dssp             -TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHH
T ss_pred             -CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHH
Confidence             33445554443332 23799999999999988762 3366788899999999999999999999999863 344  467


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .|..++....+.|+.++|..+++++.+.
T Consensus       243 l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          243 IWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8999999999999999999999999875

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.63  E-value=3.6e-15  Score=117.21  Aligned_cols=238  Identities=14%  Similarity=0.105  Sum_probs=146.0

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhC-------CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDE-------GYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS------GF  111 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~  111 (300)
                      ..++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|...+++....      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            336777777777777777777777777662       12224556667777777778888887777776543      11


Q ss_pred             -CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc------CC-CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC----
Q 043969          112 -SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV------GF-DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK----  179 (300)
Q Consensus       112 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  179 (300)
                       +....++..+...+...|++++|...+++..+.      +. +.....+..+...+...|++++|...++...+.    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence             223456677777788888888888888777653      21 223455677777888888888888888777553    


Q ss_pred             --CCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCC-------HHHHHHHHHHHhccCCHHHHHHH
Q 043969          180 --GCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITK-------GQLPN-------VFTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       180 --~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p~-------~~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                        +..| ...++..+...+...|++++|...++++.+.       ...+.       ...+..+...+...+.+.++...
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence              1122 2346777778888888888888888877652       11111       11222233333344445555555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          243 MKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +...... .+....++..+..+|.+.|++++|.+++++.++
T Consensus       267 ~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          267 YKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6555543 123456778888889999999999999988775

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.63  E-value=2.1e-14  Score=119.76  Aligned_cols=214  Identities=7%  Similarity=-0.088  Sum_probs=174.1

Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcH-HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 043969           26 ARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQY-KLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLD  104 (300)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (300)
                      +++++..++...... +.+...+..+...+...|++ ++|++.|++..+..+. +...|..+..++...|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            556666666554432 34566888899999999999 9999999999887533 67889999999999999999999999


Q ss_pred             HHHhCCCCCCHhHHHHHHHHHhcC---------CChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC--------CCHH
Q 043969          105 EMGRSGFSPDFHTYNILLHVLGKG---------DKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA--------GNLD  167 (300)
Q Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  167 (300)
                      +..+.  .|+...+..+...+...         |++++|+..+++..+.. +.+...+..+..+|...        |+++
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            98877  46778888888999998         99999999999998874 44677888888888888        8899


Q ss_pred             HHHHHHHHHHhCCCC--CccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          168 ACKYFFDEMANKGCM--PDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      +|...|+...+....  .+...|..+..++...|++++|.+.|++..+... -+...+..+..++...|++++|.+.+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999998876310  3677888999999999999999999999887643 3677788888888888988888876543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.63  E-value=2.5e-13  Score=98.41  Aligned_cols=163  Identities=17%  Similarity=0.088  Sum_probs=66.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      .|..+...+...|++++|++.|++..+.. |-+..++..+..++.+.|++++|...+....... +.+...+..+...+.
T Consensus         7 iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            7 IYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHH
Confidence            34444444444444444444444443332 2233334444444444444444444444443331 122333333333444


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACT  241 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (300)
                      ..++++.+...+....... +.+...+..+...+.+.|++++|++.|++..+... .+..+|..+..+|.+.|++++|.+
T Consensus        85 ~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~A~~  162 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDEAVK  162 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHHHHH
Confidence            4444444444444443321 11233344444444444444444444444443321 133444444444444444444444


Q ss_pred             HHHHHHH
Q 043969          242 MMKEMES  248 (300)
Q Consensus       242 ~~~~~~~  248 (300)
                      .|++..+
T Consensus       163 ~~~~al~  169 (184)
T 3vtx_A          163 YFKKALE  169 (184)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            4444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.63  E-value=1.8e-13  Score=99.18  Aligned_cols=164  Identities=13%  Similarity=0.049  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      .+|..+...+...|++++|++.|++.++..+. +..++..+..++.+.|++++|...+....... +.+...+..+...+
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~   83 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHH
Confidence            35555555555555666665555555554322 45555555555555666666655555554443 23344455555555


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQ  205 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  205 (300)
                      ...++++.+...+.+..... +.+...+..+...+.+.|++++|...|+...+.. +.+..+|..+..++.+.|++++|+
T Consensus        84 ~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHH
Confidence            55566666666555555542 3344455555555666666666666665555542 223445555566666666666666


Q ss_pred             HHHHHHHH
Q 043969          206 DLFDGMIT  213 (300)
Q Consensus       206 ~~~~~~~~  213 (300)
                      +.|++..+
T Consensus       162 ~~~~~al~  169 (184)
T 3vtx_A          162 KYFKKALE  169 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66666555

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.62  E-value=9.3e-12  Score=105.40  Aligned_cols=148  Identities=7%  Similarity=0.027  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc--ccHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          133 AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV--VCYTVMITSYIAAGELEKAQDLFDG  210 (300)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~  210 (300)
                      +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+.+.+.  .|+.  ..|...+..+.+.|++++|.++|++
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            55666665554212334555666666666666666666666666654  3332  3566666666666666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          211 MITKGQLPNVFTYNSMIRG-FCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       211 ~~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..+... .+...|...... +...|++++|..+|++..+.. +.+...|..++..+.+.|+.++|..+|++.++.
T Consensus       382 Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          382 AREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            665421 122222222111 234677777777777766641 234566777777777778888888888877765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.61  E-value=1.6e-13  Score=111.47  Aligned_cols=231  Identities=5%  Similarity=-0.052  Sum_probs=176.0

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--C----CCCHhHHH
Q 043969           51 ILHALLGIRQYKLIEWVYQQMSDE----GYAP-DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG--F----SPDFHTYN  119 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~  119 (300)
                      ....+...|++++|...+++..+.    +-++ ...++..+...+...|++++|...+++..+.-  .    +....++.
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            566778899999999999999764    2111 34678888899999999999999998875431  1    11235778


Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHc----CCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC----CC-CCccccHH
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEV----GFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANK----GC-MPDVVCYT  189 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  189 (300)
                      .+...|...|++++|...+++..+.    +.++ ...++..+...|...|++++|...+++..+.    +. +....++.
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            8889999999999999999988653    1111 1247888999999999999999999988762    22 33456788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHhccCC---HHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 043969          190 VMITSYIAAGELEKAQDLFDGMITK----GQLPNVFTYNSMIRGFCMAGK---FDEACTMMKEMESRGCNPN-FLVYNTL  261 (300)
Q Consensus       190 ~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l  261 (300)
                      .+...+.+.|++++|...+++..+.    +.+.....+..+...+...|+   +++|..++++.   +..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8999999999999999999987653    111123346778888999999   77777777655   33333 4567788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 043969          262 VSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       262 i~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ...|...|++++|.+.+++..+.
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            89999999999999999998763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=1.1e-14  Score=114.57  Aligned_cols=242  Identities=12%  Similarity=0.031  Sum_probs=171.6

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhc-------CCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC-----
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLF-------NFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDE-----   74 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----   74 (300)
                      |.+..++..+...+...|++++|...+.+....       ..+....++..+...+...|++++|...+++..+.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            345677888899999999999999999987763       22334458889999999999999999999998764     


Q ss_pred             -CC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC-CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc-
Q 043969           75 -GY-APDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS------GF-SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV-  144 (300)
Q Consensus        75 -~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  144 (300)
                       +. +....++..+...+...|++++|...+++..+.      +. +.....+..+...+...|++++|...+++..+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             22 224567888889999999999999999988654      21 223456788889999999999999999998764 


Q ss_pred             -----CCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC-------CCCCccccHHHHH-------HHHHhcCCHHHH
Q 043969          145 -----GFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANK-------GCMPDVVCYTVMI-------TSYIAAGELEKA  204 (300)
Q Consensus       145 -----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li-------~~~~~~~~~~~a  204 (300)
                           +..| ...++..+...+...|++++|...++...+.       ...+.........       ..+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 2122 3457888899999999999999999998753       1222222222222       223333444555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          205 QDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...+....... +.+..++..+..+|...|++++|.+.+++..+.
T Consensus       264 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          264 GGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             C---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            55566555432 235677889999999999999999999988763

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.60  E-value=6.1e-13  Score=110.89  Aligned_cols=270  Identities=11%  Similarity=-0.057  Sum_probs=180.9

Q ss_pred             hHHHHHHHHHhhc--cccHHHHHHHHHHhhhcCCCcC-HHHHHHHHHH---HHccCcHHHHHHHHHHhhhCCCCCCHhhH
Q 043969           10 ARTFNILICTCGE--VGLARKVVERFIKSKLFNFRPF-KNSYNAILHA---LLGIRQYKLIEWVYQQMSDEGYAPDILTY   83 (300)
Q Consensus        10 ~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (300)
                      ..++..+..++..  .+++++|++.|++....+  |+ ...+..+..+   +...++.++|++.+++..+..+. +..++
T Consensus       136 ~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~  212 (472)
T 4g1t_A          136 PELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLK  212 (472)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHH
T ss_pred             HHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHH
Confidence            3455555444443  457999999999988764  44 3344444444   44567778899999988876533 56666


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           84 NIVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        84 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ..+...+..    .+++++|.+++++..... +.+..++..+...|...|++++|...+++..+.. |.+..++..+..+
T Consensus       213 ~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  290 (472)
T 4g1t_A          213 VLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCC  290 (472)
T ss_dssp             HHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHH
Confidence            666555544    467789999999987765 5677889999999999999999999999998873 4455666666655


Q ss_pred             HHhC-------------------CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043969          160 LSRA-------------------GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV  220 (300)
Q Consensus       160 ~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~  220 (300)
                      |...                   +..+.|...++...+.. +.+...+..+...+...|++++|+..|++..+....|..
T Consensus       291 y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~  369 (472)
T 4g1t_A          291 YRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVA  369 (472)
T ss_dssp             HHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChH
Confidence            5332                   23567777787776653 346778899999999999999999999999886543322


Q ss_pred             H--HHHHHHH-HHhccCCHHHHHHHHHHHHHCC-----------------------CCCCHHHHHHHHHHHHhcCCHHHH
Q 043969          221 F--TYNSMIR-GFCMAGKFDEACTMMKEMESRG-----------------------CNPNFLVYNTLVSNLRNAGKLAEA  274 (300)
Q Consensus       221 ~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~-----------------------~~~~~~~~~~li~~~~~~g~~~~a  274 (300)
                      .  .+..+.. .....|++++|+..+++..+..                       -+.+..+|..+..+|...|++++|
T Consensus       370 ~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A  449 (472)
T 4g1t_A          370 KQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQA  449 (472)
T ss_dssp             HHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            1  2223322 3356789999999888876532                       123456888899999999999999


Q ss_pred             HHHHHHHHHcC
Q 043969          275 HEVIRHMVEKG  285 (300)
Q Consensus       275 ~~~~~~~~~~~  285 (300)
                      .+.|++.++.+
T Consensus       450 ~~~y~kALe~~  460 (472)
T 4g1t_A          450 DEDSERGLESG  460 (472)
T ss_dssp             -----------
T ss_pred             HHHHHHHHhcC
Confidence            99999999877

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.58  E-value=2.4e-12  Score=104.05  Aligned_cols=271  Identities=11%  Similarity=0.003  Sum_probs=193.7

Q ss_pred             HHHHHHhhccccHHHHHHHHHHhhhcCCCcCHH----HHHHHHHHHHccCcHHHHHHHHHHhhhCCCC-CC----HhhHH
Q 043969           14 NILICTCGEVGLARKVVERFIKSKLFNFRPFKN----SYNAILHALLGIRQYKLIEWVYQQMSDEGYA-PD----ILTYN   84 (300)
Q Consensus        14 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~   84 (300)
                      ......+...|++++|...+++........+..    +++.+...+...|++++|...+++..+.... ++    ..++.
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            334455667899999999999876643222221    5667778888999999999999988763111 12    23356


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCC--C-CHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC----CcHhhH
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRS----GFS--P-DFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFD----PSVLHF  153 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~  153 (300)
                      .+...+...|++++|...+++....    +.+  | ....+..+...+...|++++|...+++.......    .....+
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            6778889999999999999887543    222  2 2345667788899999999999999998765321    123567


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc-ccHH-----HHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHH
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANKGCMPDV-VCYT-----VMITSYIAAGELEKAQDLFDGMITKGQLP---NVFTYN  224 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~  224 (300)
                      ..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+   ....+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            77888899999999999999988654212221 1222     23344778999999999999887643221   133567


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          225 SMIRGFCMAGKFDEACTMMKEMESR----GCNPNF-LVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...+++..+.
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            7888999999999999999988653    222222 35666777889999999999999988764

>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=99.58  E-value=6.2e-12  Score=112.98  Aligned_cols=216  Identities=14%  Similarity=0.144  Sum_probs=122.8

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      +|..+..++...|++++|.+.|.+.      -|...|..++.++.+.|++++|.+.+...++..  +++...+.++.+|.
T Consensus      1107 vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYA 1178 (1630)
T 1xi4_A         1107 VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALA 1178 (1630)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHH
Confidence            4555555555555555555555332      144455555555555555555555555444432  22222233555555


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      +.+++++...+    .+   .++...+..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+
T Consensus      1179 Kl~rleele~f----I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIE 1242 (1630)
T 1xi4_A         1179 KTNRLAELEEF----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVD 1242 (1630)
T ss_pred             hhcCHHHHHHH----Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHH
Confidence            55554432222    11   223344445556666666666666666553         256666666666666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-
Q 043969          207 LFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG-  285 (300)
Q Consensus       207 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-  285 (300)
                      .+++.      .+..+|..+..+|...|+++.|......     +..+...+..++..|.+.|.+++|..+++..+... 
T Consensus      1243 aarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Ler 1311 (1630)
T 1xi4_A         1243 GARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLER 1311 (1630)
T ss_pred             HHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCh
Confidence            66654      1456666666666666666666655432     23356667788899999999999999998886543 


Q ss_pred             ----hHHHHHHHhhhh
Q 043969          286 ----KYIHLVSKFKRY  297 (300)
Q Consensus       286 ----~~~~l~~~~~~~  297 (300)
                          .|..+...+.++
T Consensus      1312 aH~gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1312 AHMGMFTELAILYSKF 1327 (1630)
T ss_pred             hHhHHHHHHHHHHHhC
Confidence                554555555544

>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=99.57  E-value=6.3e-12  Score=112.95  Aligned_cols=254  Identities=15%  Similarity=0.146  Sum_probs=187.8

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      ++.+|..+..++.+.|++++|++.|.+.      -|...|..++.++.+.|++++|.+.+....+...  +....+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~--e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc--cccccHHHHH
Confidence            4778999999999999999999999775      4455888999999999999999999998887653  3333445888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDA  168 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (300)
                      +|++.+++++...+.    .   .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++++
T Consensus      1176 aYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~ 1239 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQA 1239 (1630)
T ss_pred             HHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHH
Confidence            999999988644442    2   356677888999999999999999999985         378999999999999999


Q ss_pred             HHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          169 CKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      |.+.++...      +..+|..+-.+|...|++..|......+.     .+...+..++..|.+.|.+++|+.+++....
T Consensus      1240 AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~ 1308 (1630)
T 1xi4_A         1240 AVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALG 1308 (1630)
T ss_pred             HHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999998773      55778888888888888888877665432     3556677888888888888888888877665


Q ss_pred             CCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHcC----------hHHHHHHHhhhhh
Q 043969          249 RGCNPNFLVYNTLVSNLRN--AGKLAEAHEVIRHMVEKG----------KYIHLVSKFKRYK  298 (300)
Q Consensus       249 ~~~~~~~~~~~~li~~~~~--~g~~~~a~~~~~~~~~~~----------~~~~l~~~~~~~~  298 (300)
                      .. +-....|..+...|.+  -++..++.++|..-..-.          .|..++..|.+++
T Consensus      1309 Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~ 1369 (1630)
T 1xi4_A         1309 LE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYE 1369 (1630)
T ss_pred             cC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcc
Confidence            42 2233445455555543  344445555544333211          4666666665543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=1.5e-11  Score=104.20  Aligned_cols=218  Identities=11%  Similarity=0.065  Sum_probs=166.0

Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcC
Q 043969           63 LIEWVYQQMSDEGYAPDILTYNIVMCAKYR-------LGKLD-------QFHRLLDEMGRSGFSPDFHTYNILLHVLGKG  128 (300)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (300)
                      .+..+|++++... +.+...|..+...+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            3444555555442 2255666666666664       68877       8999999988632345688899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCc--HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHH-HHhcCCHHHHH
Q 043969          129 DKPLAALNLLNHMKEVGFDPS--VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITS-YIAAGELEKAQ  205 (300)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~~~a~  205 (300)
                      |++++|..+|+++.+.  +|+  ...|..++..+.+.|++++|..+|+...+.. +.+...|...... +...|+.++|.
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHH
Confidence            9999999999999986  443  2578888999999999999999999998762 1222333322222 34689999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          206 DLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-CNPN--FLVYNTLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      .+|+...+.. +-+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+.+..+++++.
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999988763 2368899999999999999999999999999863 2332  4477788888888999999999999988


Q ss_pred             HcC
Q 043969          283 EKG  285 (300)
Q Consensus       283 ~~~  285 (300)
                      +.-
T Consensus       491 ~~~  493 (530)
T 2ooe_A          491 TAF  493 (530)
T ss_dssp             HHT
T ss_pred             HHC
Confidence            654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.56  E-value=2.5e-13  Score=111.17  Aligned_cols=237  Identities=12%  Similarity=0.026  Sum_probs=183.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHhH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI----LTYNIVMCAKYRLGKLDQFHRLLDEMGRS----GF-SPDFHT  117 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~  117 (300)
                      .+..+...+...|++++|...|+++.+.... +.    ..+..+...+...|++++|...+++....    +. +....+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            5667788889999999999999999987433 33    46788889999999999999999887543    11 223467


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHc----C-CCCcHhhHHHHHHHHHhCCC-----------------HHHHHHHHHH
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEV----G-FDPSVLHFTTLMDGLSRAGN-----------------LDACKYFFDE  175 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~  175 (300)
                      +..+...|...|++++|...+++..+.    + .+....++..+...|...|+                 +++|...+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            788888999999999999999987654    1 12234577888889999999                 9999999887


Q ss_pred             HHhC----CCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          176 MANK----GCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL-PN----VFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       176 ~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      ..+.    +..+ ....+..+...+...|++++|...+++..+.... ++    ..++..+...|...|++++|...+++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            6542    1111 2347788889999999999999999988764110 12    23788899999999999999999998


Q ss_pred             HHHCC--CC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          246 MESRG--CN---PNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       246 ~~~~~--~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..+..  ..   ....++..+...+...|++++|.+.+++.++.
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            87631  11   11467788888999999999999999998765

>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=99.53  E-value=3.5e-12  Score=92.07  Aligned_cols=161  Identities=8%  Similarity=-0.053  Sum_probs=76.5

Q ss_pred             HHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           13 FNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      |..+...+...|++++|.+.+++..... +.+...+..+...+...|++++|...++++.+... .+...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHH
Confidence            3444444555555555555555544332 22333445555555555555555555555544421 134444444555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHH
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYF  172 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (300)
                      .|++++|.+.++++.... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...
T Consensus        89 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            555555555555544432 2334444444445555555555555555544432 22334444444444455555555555


Q ss_pred             HHHHH
Q 043969          173 FDEMA  177 (300)
Q Consensus       173 ~~~~~  177 (300)
                      ++...
T Consensus       167 ~~~~~  171 (186)
T 3as5_A          167 FKKAN  171 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.53  E-value=1.1e-12  Score=106.38  Aligned_cols=230  Identities=7%  Similarity=-0.039  Sum_probs=174.7

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhc----CCCc-CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCC------CCCHhhHH
Q 043969           16 LICTCGEVGLARKVVERFIKSKLF----NFRP-FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGY------APDILTYN   84 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~   84 (300)
                      ....+...|++++|++.+.+....    +-.+ ...+|..+...+...|+++.|...+++..+.-.      +....+++
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            445567889999999999997653    1122 234889999999999999999999998876311      11245778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CC-CCcHhhHH
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRSGF-SPD----FHTYNILLHVLGKGDKPLAALNLLNHMKEV----GF-DPSVLHFT  154 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  154 (300)
                      .+...+...|++++|...+++..+..- .++    ..++..+...|...|++++|...+++..+.    +. +....++.
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            888999999999999999988754310 011    247888899999999999999999998762    33 44467788


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC----CCCCccccHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 043969          155 TLMDGLSRAGNLDACKYFFDEMANK----GCMPDVVCYTVMITSYIAAGE---LEKAQDLFDGMITKGQLP-NVFTYNSM  226 (300)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p-~~~~~~~l  226 (300)
                      .+...+.+.|++++|...++...+.    +-+.....+..+...+...|+   +++|+.++++.   +..| ....+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            9999999999999999999987653    111122335667778888888   77788887765   2222 34567789


Q ss_pred             HHHHhccCCHHHHHHHHHHHHH
Q 043969          227 IRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ...|...|++++|...+++..+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999998875

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.53  E-value=5.2e-13  Score=105.80  Aligned_cols=237  Identities=11%  Similarity=0.010  Sum_probs=180.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCHhH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD----ILTYNIVMCAKYRLGKLDQFHRLLDEMGRS----GFS-PDFHT  117 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~  117 (300)
                      .+......+...|++++|...|+++.+.... +    ...+..+...+...|++++|...+++....    +.. ....+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            5566777888999999999999999987433 3    367778889999999999999999886432    211 12556


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCC-CCc----HhhHHHHHHHHHhCCC--------------------HHHHHHH
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEVGF-DPS----VLHFTTLMDGLSRAGN--------------------LDACKYF  172 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~  172 (300)
                      +..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            78888899999999999999998765311 111    3477788889999999                    9999999


Q ss_pred             HHHHHhC----CCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCCHHHHHHH
Q 043969          173 FDEMANK----GCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQ-LPN----VFTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       173 ~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                      ++.....    +..+ ....+..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  245 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  245 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8876532    1111 234678888899999999999999998765310 012    34788889999999999999999


Q ss_pred             HHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          243 MKEMESR----GCNP-NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       243 ~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      +++..+.    +..+ ...++..+...+...|++++|.+.+++..+.
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          246 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            9988753    1111 1456778888999999999999999998764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.53  E-value=9.8e-13  Score=107.23  Aligned_cols=242  Identities=11%  Similarity=0.004  Sum_probs=185.4

Q ss_pred             CcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC
Q 043969           42 RPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD----ILTYNIVMCAKYRLGKLDQFHRLLDEMGRS----GFSP  113 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  113 (300)
                      .+....+......+...|++++|...|+++.+.... +    ..++..+...+...|++++|...+++....    +-.|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            344556778888999999999999999999987433 3    356788889999999999999999886432    2112


Q ss_pred             -CHhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCC-CcHhhHHHHHHHHHhCCC--------------------HH
Q 043969          114 -DFHTYNILLHVLGKGDKPLAALNLLNHMKEV----GFD-PSVLHFTTLMDGLSRAGN--------------------LD  167 (300)
Q Consensus       114 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~--------------------~~  167 (300)
                       ...++..+...+...|++++|...+++..+.    +.+ ....++..+...+...|+                    ++
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             2456788888999999999999999987653    111 113477888889999999                    99


Q ss_pred             HHHHHHHHHHhC----CCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCCHH
Q 043969          168 ACKYFFDEMANK----GCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQ-LPN----VFTYNSMIRGFCMAGKFD  237 (300)
Q Consensus       168 ~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~  237 (300)
                      +|...++...+.    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+++
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            999999876542    1111 234678888999999999999999998875311 112    347888999999999999


Q ss_pred             HHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          238 EACTMMKEMESR----GCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       238 ~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      +|...+++..+.    +..+. ..++..+...|...|++++|.+.+++..+.
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            999999988753    11111 457788888999999999999999998764

>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=99.52  E-value=3.5e-12  Score=92.06  Aligned_cols=161  Identities=17%  Similarity=0.052  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .|..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            444555555555666666666655554422 244455555555555555555555555554442 233444444555555


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            5555555555555544432 2233344444444444444444444444443331 1123333344444444444444444


Q ss_pred             HHHHH
Q 043969          207 LFDGM  211 (300)
Q Consensus       207 ~~~~~  211 (300)
                      .+++.
T Consensus       166 ~~~~~  170 (186)
T 3as5_A          166 HFKKA  170 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>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=99.50  E-value=2.4e-12  Score=111.80  Aligned_cols=168  Identities=10%  Similarity=-0.001  Sum_probs=144.3

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      |-+...|+.|...+.+.|++++|++.|++..+.. +-+..+|+.+..++.+.|++++|++.|++.++.... +...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3357789999999999999999999999988764 334568999999999999999999999999987543 68889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      ..++.+.|++++|++.|++..+.. +-+...|..+..++...|++++|++.|++..+.. +-+...+..+..++...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccH
Confidence            999999999999999999988775 4567889999999999999999999999998874 44677889999999999999


Q ss_pred             HHHHHHHHHHHh
Q 043969          167 DACKYFFDEMAN  178 (300)
Q Consensus       167 ~~a~~~~~~~~~  178 (300)
                      ++|.+.+++..+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988887654

>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=99.49  E-value=2.4e-11  Score=91.11  Aligned_cols=192  Identities=11%  Similarity=0.044  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      ..+......+...|++++|...|++..+...+++...+..+..++...|++++|+..+++..+.. +.+...+..+..++
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   86 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAY   86 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHH
Confidence            44555555555555555555555555554432444444445555555566666666665555443 22344555555555


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcH-------hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc---cccHHHHHHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSV-------LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD---VVCYTVMITSY  195 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~  195 (300)
                      ...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|...|+...+.  .|+   ...+..+..++
T Consensus        87 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           87 RDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHH
Confidence            56666666666666555542 2222       23455555566666666666666666554  232   33444444444


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          196 IAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...|     ..+++++...+. .+...|.....  ...+.+++|...+++..+.
T Consensus       164 ~~~~-----~~~~~~a~~~~~-~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          164 YNNG-----ADVLRKATPLAS-SNKEKYASEKA--KADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHH-----HHHHHHHGGGTT-TCHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHH-----HHHHHHHHhccc-CCHHHHHHHHH--HHHHHHHHHHHHHHHHhhc
Confidence            3332     233333333321 13333333322  2345567777777776664

>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=99.49  E-value=7.9e-13  Score=102.24  Aligned_cols=228  Identities=16%  Similarity=0.113  Sum_probs=156.8

Q ss_pred             HccCcHHHHHHHHHHhhhC-------CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC-CCCHhHHHHH
Q 043969           56 LGIRQYKLIEWVYQQMSDE-------GYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS------GF-SPDFHTYNIL  121 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  121 (300)
                      ...|++++|+..+++..+.       ..+....++..+...+...|++++|...+++....      +- +....++..+
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            3557777777777666552       22234667888899999999999999999998654      21 2235678889


Q ss_pred             HHHHhcCCChHHHHHHHHHHHHc------C-CCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC------CCCC-cccc
Q 043969          122 LHVLGKGDKPLAALNLLNHMKEV------G-FDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK------GCMP-DVVC  187 (300)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  187 (300)
                      ...+...|++++|...+++..+.      . .+.....+..+...+...|++++|...+++..+.      +..| ...+
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 1234567888999999999999999999998764      1122 3567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCC-CHHHHHHHHHHHhccCC------HHHHHHHHHHHHHCCCCC
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITK-------GQLP-NVFTYNSMIRGFCMAGK------FDEACTMMKEMESRGCNP  253 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p-~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~  253 (300)
                      +..+...+...|++++|...+++..+.       ...+ ....+..+...+...+.      +..+...++.... ..+.
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            888999999999999999999998763       1112 22233333333333222      2222222222111 1122


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          254 NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       254 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ...++..+...|...|++++|.+++++.++.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457888889999999999999999998753

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.49  E-value=8.5e-12  Score=101.04  Aligned_cols=231  Identities=10%  Similarity=-0.015  Sum_probs=174.1

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCC-CC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CC-CHhHH
Q 043969           50 AILHALLGIRQYKLIEWVYQQMSDEGY-AP----DILTYNIVMCAKYRLGKLDQFHRLLDEMGRS----GF-SP-DFHTY  118 (300)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~  118 (300)
                      .....+...|++++|...|++..+... .+    ...++..+...+...|+++.|...+++....    +- .+ ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            345556788999999999999876421 11    2457788889999999999999999887543    10 11 24567


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHc----CCC-CcHhhHHHHHHHHHhCCCHHHHHHHHHHHHh-----CCCCCccccH
Q 043969          119 NILLHVLGKGDKPLAALNLLNHMKEV----GFD-PSVLHFTTLMDGLSRAGNLDACKYFFDEMAN-----KGCMPDVVCY  188 (300)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  188 (300)
                      ..+...|...|++++|...+++..+.    +.+ ....++..+..+|...|++++|...+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            78889999999999999999987653    111 1235678888999999999999999999876     32 2336678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHhccCC---HHHHHHHHHHHHHCCCCCC-HHHHHH
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKG----QLPNVFTYNSMIRGFCMAGK---FDEACTMMKEMESRGCNPN-FLVYNT  260 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~  260 (300)
                      ..+...+.+.|++++|...+++..+..    .+.....+..+...+...++   +.+|...+++   .+..|+ ...+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHH
Confidence            889999999999999999999987642    22224456777777888888   7777777765   322333 346677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          261 LVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       261 li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      +...|...|++++|.+.|++..+.
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            888999999999999999998764

>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=99.48  E-value=3.3e-12  Score=110.99  Aligned_cols=165  Identities=10%  Similarity=0.010  Sum_probs=145.2

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ..+|+.+...+.+.|++++|++.|++.++.... +..++..+..++.+.|++++|+..|++..+.. +-+...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            458999999999999999999999999987543 68899999999999999999999999998875 4467889999999


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKA  204 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  204 (300)
                      +...|++++|++.|++..+.. +-+...++.+..+|...|++++|...|++..+.. +-+...+..+..++...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHH
Confidence            999999999999999998874 4467889999999999999999999999998863 23567889999999999999999


Q ss_pred             HHHHHHHHH
Q 043969          205 QDLFDGMIT  213 (300)
Q Consensus       205 ~~~~~~~~~  213 (300)
                      .+.+++..+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998887754

>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=99.46  E-value=1.9e-11  Score=91.65  Aligned_cols=206  Identities=10%  Similarity=-0.056  Sum_probs=158.0

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      .|+..+......+...|++++|++.|.+......+++...+..+..++...|++++|+..+++..+..+. +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4678888899999999999999999999988764477777878999999999999999999999987544 677889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH-------hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc---HhhHHHHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDF-------HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS---VLHFTTLM  157 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  157 (300)
                      ..+...|++++|...+++..+.. +.+.       ..|..+...+...|++++|+..|++..+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999998764 3345       45778888899999999999999999886  344   56677777


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          158 DGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSM  226 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  226 (300)
                      .+|...     +...++.+...+ ..+...|....  ....+.+++|...+++..+.... +..+...+
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQ  220 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            777544     344455555543 22333343333  34466789999999999886422 44444443

>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=99.46  E-value=2.1e-12  Score=99.79  Aligned_cols=228  Identities=11%  Similarity=0.027  Sum_probs=156.0

Q ss_pred             hccccHHHHHHHHHHhhh-------cCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC------CCCC-CHhhHHHH
Q 043969           21 GEVGLARKVVERFIKSKL-------FNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDE------GYAP-DILTYNIV   86 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l   86 (300)
                      ...|++++|+..+++...       .+.+....++..+...+...|++++|...++++.+.      +-.| ...++..+
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            345565555555555433       222334558899999999999999999999998865      2222 45678888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC------C-CCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc------CCCC-cHhh
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRS------G-FSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV------GFDP-SVLH  152 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  152 (300)
                      ...+...|++++|...+++....      . .+....++..+...+...|++++|...+++..+.      +..| ...+
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            99999999999999999998654      1 1234567888899999999999999999998765      1122 3567


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhC-------CCCCccc-cHHHHHHHHHhcCC------HHHHHHHHHHHHHCCCCC
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANK-------GCMPDVV-CYTVMITSYIAAGE------LEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-~~~~li~~~~~~~~------~~~a~~~~~~~~~~~~~p  218 (300)
                      +..+...+...|++++|...+++..+.       ...+... .+..+.......+.      +..+...+...... .+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHH
Confidence            888999999999999999999988753       1223333 33333333333222      33333333322211 122


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          219 NVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...++..+...|...|++++|...+++..+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3567888999999999999999999988753

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=2.3e-11  Score=98.48  Aligned_cols=229  Identities=10%  Similarity=-0.042  Sum_probs=170.5

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCC-CcC----HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCC-----CC-CHhhHHH
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNF-RPF----KNSYNAILHALLGIRQYKLIEWVYQQMSDEGY-----AP-DILTYNI   85 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~~~   85 (300)
                      ...+...|++++|++.+.+...... .++    ..++..+...+...|+++.|...+++..+...     .+ ...+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            3445678999999999998765321 122    33788899999999999999999998875311     11 2457788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCCcHhhHHHH
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRS----GFSP-DFHTYNILLHVLGKGDKPLAALNLLNHMKEV----GFDPSVLHFTTL  156 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l  156 (300)
                      +...+...|++++|.+.+++..+.    +-++ ...++..+..+|...|++++|...+++..+.    +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            889999999999999999887543    1111 2346778888999999999999999998761    233346778889


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCC----CccccHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCM----PDVVCYTVMITSYIAAGE---LEKAQDLFDGMITKGQLP-NVFTYNSMIR  228 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p-~~~~~~~l~~  228 (300)
                      ...+.+.|++++|...++...+....    .....+..+...+...++   +++|+..+++.   +..| ....+..+..
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~  344 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHHH
Confidence            99999999999999999998764221    122345555566667777   77787777763   2222 2356678899


Q ss_pred             HHhccCCHHHHHHHHHHHHH
Q 043969          229 GFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .|...|++++|...+++..+
T Consensus       345 ~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999998875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.41  E-value=2.2e-10  Score=92.50  Aligned_cols=237  Identities=11%  Similarity=0.017  Sum_probs=169.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HhHH
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDIL----TYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPD----FHTY  118 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~  118 (300)
                      .......+...|++++|...+++..+.....+..    +++.+...+...|++++|...+++.....- ..+    ..++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3445556678899999999999988764332322    456666788889999999999988754310 112    2235


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHc----CCC--C-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC--C--cccc
Q 043969          119 NILLHVLGKGDKPLAALNLLNHMKEV----GFD--P-SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCM--P--DVVC  187 (300)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~  187 (300)
                      ..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++.......  +  ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            66777889999999999999987653    222  2 2345667888899999999999999988654221  1  2245


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHH----HHHHHHhccCCHHHHHHHHHHHHHCCCCC---CHHHH
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITKGQLPN--VFTYN----SMIRGFCMAGKFDEACTMMKEMESRGCNP---NFLVY  258 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~  258 (300)
                      +..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+   ....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            77788889999999999999998875411111  12111    23345778999999999999887643221   12346


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          259 NTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       259 ~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..+...+...|++++|...+++..+.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~  282 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNEN  282 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            67778899999999999999988654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.40  E-value=1.3e-10  Score=96.35  Aligned_cols=189  Identities=11%  Similarity=0.077  Sum_probs=113.5

Q ss_pred             hHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcC----CChHHHHHHHHHHHHcCCCCcHhhHH
Q 043969           82 TYNIVMCAKYRLG---KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG----DKPLAALNLLNHMKEVGFDPSVLHFT  154 (300)
Q Consensus        82 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (300)
                      .+..+...|...|   +.++|++.|++..+.| +++...+..+...|...    +++++|+..|++.. .|   +...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHH
Confidence            5555666666666   6667777777766665 34444445555555443    56677777777665 32   334444


Q ss_pred             HHHHH-H--HhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          155 TLMDG-L--SRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAG-----ELEKAQDLFDGMITKGQLPNVFTYNSM  226 (300)
Q Consensus       155 ~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~p~~~~~~~l  226 (300)
                      .+... +  ...+++++|...|+...+.|   +...+..+...|. .|     ++++|...|++.. .|   +...+..+
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHH
Confidence            45444 3  44667777777777766654   4455555555555 44     6777777777665 32   55566666


Q ss_pred             HHHHhc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCh
Q 043969          227 IRGFCM----AGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRN----AGKLAEAHEVIRHMVEKGK  286 (300)
Q Consensus       227 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~  286 (300)
                      ...|..    ..++++|...|++..+.|.   ......|...|..    ..+.++|..+|+...+.|.
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            666554    3367777777777766542   3344445555543    3467777777777777763

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.40  E-value=2.5e-11  Score=94.68  Aligned_cols=195  Identities=13%  Similarity=0.103  Sum_probs=107.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhC----CCCCC-HhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCC-cHhhHHHHHH
Q 043969           89 AKYRLGKLDQFHRLLDEMGRS----GFSPD-FHTYNILLHVLGKGDKPLAALNLLNHMKEV----GFDP-SVLHFTTLMD  158 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~  158 (300)
                      .|...|++++|...|.+....    |-+++ ..+|..+..+|.+.|++++|+..+++..+.    |-.. ...+++.+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455566666666666555332    21111 345666666666666666666666665442    1000 1235666666


Q ss_pred             HHHhC-CCHHHHHHHHHHHHhCCCCC-c----cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHH
Q 043969          159 GLSRA-GNLDACKYFFDEMANKGCMP-D----VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV------FTYNSM  226 (300)
Q Consensus       159 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------~~~~~l  226 (300)
                      .|... |++++|...|++..+..... +    ..++..+...+.+.|++++|+..|++..+.......      ..|..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            66664 77777777776665431000 0    234666667777777777777777776664322111      145666


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHH--hcCCHHHHHHHHHHHHHcC
Q 043969          227 IRGFCMAGKFDEACTMMKEMESRGCNPNF------LVYNTLVSNLR--NAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~--~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..++...|++++|...+++..+.  .|+.      ..+..++.++.  ..+++++|+..|+++.+.+
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~  270 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccH
Confidence            66677777777777777766643  2221      12333444443  3456777777776666555

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.39  E-value=2.3e-10  Score=94.80  Aligned_cols=254  Identities=12%  Similarity=0.020  Sum_probs=169.4

Q ss_pred             chHHHHHHHHHhhcc-----ccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHH---HHHHHHHHhhhCCCCCCH
Q 043969            9 TARTFNILICTCGEV-----GLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYK---LIEWVYQQMSDEGYAPDI   80 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~   80 (300)
                      ++..+..|...+...     ++.++|+.+|++....+ .|+  .+..+...|...+..+   .+.+.+....+.|   +.
T Consensus        68 ~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g-~~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~  141 (452)
T 3e4b_A           68 SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANG-EGN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YP  141 (452)
T ss_dssp             ---CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTT-CSS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CT
T ss_pred             CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCC-CHH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CH
Confidence            444555555533333     37888998888887755 233  5666777776655433   3445555555444   34


Q ss_pred             hhHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC---ChHHHHHHHHHHHHcCCCCcHhhH
Q 043969           81 LTYNIVMCAKYRLGKLDQ----FHRLLDEMGRSGFSPDFHTYNILLHVLGKGD---KPLAALNLLNHMKEVGFDPSVLHF  153 (300)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  153 (300)
                      .....+...|...+.+++    +..+++....    .++..+..|...|...|   +.++|++.|++..+.| +++...+
T Consensus       142 ~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~----~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~  216 (452)
T 3e4b_A          142 EAGLAQVLLYRTQGTYDQHLDDVERICKAALN----TTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRV  216 (452)
T ss_dssp             THHHHHHHHHHHHTCGGGGHHHHHHHHHHHTT----TCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHH
T ss_pred             HHHHHHHHHHHcCCCcccCHHHHHHHHHHHHc----CCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHH
Confidence            566667777777774444    4444443332    23347777888888888   8888888888888876 4455555


Q ss_pred             HHHHHHHHhC----CCHHHHHHHHHHHHhCCCCCccccHHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 043969          154 TTLMDGLSRA----GNLDACKYFFDEMANKGCMPDVVCYTVMITS-Y--IAAGELEKAQDLFDGMITKGQLPNVFTYNSM  226 (300)
Q Consensus       154 ~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  226 (300)
                      ..+...|...    +++++|...|+... .|   +...+..+... +  ...+++++|...|++..+.|   +...+..+
T Consensus       217 ~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~L  289 (452)
T 3e4b_A          217 DSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLL  289 (452)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            5666666554    68888988888877 33   55566666665 3  45788899999998888776   66777777


Q ss_pred             HHHHhccC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 043969          227 IRGFCMAG-----KFDEACTMMKEMESRGCNPNFLVYNTLVSNLRN----AGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       227 ~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  285 (300)
                      ...|. .|     ++++|.+.|++.. .   -+......+...|..    ..+.++|..+|++..+.|
T Consensus       290 g~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          290 GKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             HHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             HHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            77776 45     8888988888777 3   355666667766665    348889999998888887

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.34  E-value=4.5e-10  Score=86.57  Aligned_cols=241  Identities=10%  Similarity=0.012  Sum_probs=144.6

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      .-.|++..++.-..+....  .++ ..-.-+.+++...|++...         ....|....+..+.. |...+    |+
T Consensus        24 fy~G~yq~~i~e~~~~~~~--~~~-~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~----a~   86 (310)
T 3mv2_B           24 YYTGNFVQCLQEIEKFSKV--TDN-TLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK----NI   86 (310)
T ss_dssp             HTTTCHHHHTHHHHTSSCC--CCH-HHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT----CC
T ss_pred             HHhhHHHHHHHHHHhcCcc--chH-HHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc----HH
Confidence            3457787777754443221  222 2333345667666665531         112333334333333 22222    56


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC-CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGF-DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ..+++....+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.|.+.
T Consensus        87 ~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~  165 (310)
T 3mv2_B           87 EELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA  165 (310)
T ss_dssp             HHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            6677666554 45555556777777888888888888887765542 235566777778888888888888888888765


Q ss_pred             CCCC-----ccccHHHHHHHHH--hcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-
Q 043969          180 GCMP-----DVVCYTVMITSYI--AAG--ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR-  249 (300)
Q Consensus       180 ~~~~-----~~~~~~~li~~~~--~~~--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  249 (300)
                        .|     +..+...++.++.  ..|  ++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+. 
T Consensus       166 --~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          166 --IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             --SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             --CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence              44     2455555555532  234  788888888887654  244333334444777888888888888765542 


Q ss_pred             ----C----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          250 ----G----CNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       250 ----~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                          +    -+-+..++..+|......|+  +|.++++++.+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                0    02345566455555555666  7778888887765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.34  E-value=2e-10  Score=88.01  Aligned_cols=186  Identities=8%  Similarity=-0.085  Sum_probs=115.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHhHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD---ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF--SPDFHTY  118 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~  118 (300)
                      +...+......+.+.|++++|...|+++.+..+. +   ...+..+..++.+.|++++|...|+.+.+..-  +.....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            3446666777777788888888888887776422 2   55666777777888888888888887766521  1123455


Q ss_pred             HHHHHHHhc--------CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHH
Q 043969          119 NILLHVLGK--------GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTV  190 (300)
Q Consensus       119 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (300)
                      ..+..++..        .|++++|+..|+++.+.. +.+......+..              +......    -...+..
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~--------------~~~~~~~----~~~~~~~  153 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQK--------------IRELRAK----LARKQYE  153 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHH--------------HHHHHHH----HHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHH--------------HHHHHHH----HHHHHHH
Confidence            566666666        777777777777777652 212222211110              0000000    0111455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhcc----------CCHHHHHHHHHHHHHC
Q 043969          191 MITSYIAAGELEKAQDLFDGMITKGQLP--NVFTYNSMIRGFCMA----------GKFDEACTMMKEMESR  249 (300)
Q Consensus       191 li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~  249 (300)
                      +...|.+.|++++|+..|+++.+.....  ....+..+..+|...          |++++|...++++.+.
T Consensus       154 la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          154 AARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            6677778888888888888877653221  245666677777655          7788888888888764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.33  E-value=2.2e-10  Score=89.29  Aligned_cols=207  Identities=11%  Similarity=-0.005  Sum_probs=150.9

Q ss_pred             cHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCCC-HhhHHHHHHHHHhcCCHHHH
Q 043969           25 LARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDE----GYAPD-ILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a   99 (300)
                      ++++|.+.+.+.               ...+...|++++|...|++..+.    |.+++ ..+|+.+..+|...|++++|
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            466676666554               45677889999999999888653    32222 56888999999999999999


Q ss_pred             HHHHHHHHhCCC---CCC--HhHHHHHHHHHhcC-CChHHHHHHHHHHHHcCCC---C-c-HhhHHHHHHHHHhCCCHHH
Q 043969          100 HRLLDEMGRSGF---SPD--FHTYNILLHVLGKG-DKPLAALNLLNHMKEVGFD---P-S-VLHFTTLMDGLSRAGNLDA  168 (300)
Q Consensus       100 ~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~---~-~-~~~~~~l~~~~~~~~~~~~  168 (300)
                      +..+++......   .+.  ..++..+...|... |++++|+..|++..+....   + . ..++..+...+.+.|++++
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            999988754310   111  35788888999996 9999999999998764211   1 1 3568888999999999999


Q ss_pred             HHHHHHHHHhCCCCCccc------cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHh--ccC
Q 043969          169 CKYFFDEMANKGCMPDVV------CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV------FTYNSMIRGFC--MAG  234 (300)
Q Consensus       169 a~~~~~~~~~~~~~~~~~------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~--~~~  234 (300)
                      |...|+...+........      .|..+..++...|++++|...|++..+.  .|+.      ..+..++.++.  ..+
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            999999998864322221      4677788899999999999999998764  2321      23455666664  456


Q ss_pred             CHHHHHHHHHHHHH
Q 043969          235 KFDEACTMMKEMES  248 (300)
Q Consensus       235 ~~~~a~~~~~~~~~  248 (300)
                      ++++|+..|+.+..
T Consensus       255 ~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          255 QLSEHCKEFDNFMR  268 (292)
T ss_dssp             THHHHHHHHTTSSC
T ss_pred             HHHHHHHHhccCCc
Confidence            78888888876654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.33  E-value=2.5e-10  Score=87.40  Aligned_cols=185  Identities=9%  Similarity=0.017  Sum_probs=129.9

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC----HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCC-C-CHh
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPF----KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYA-P-DIL   81 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~   81 (300)
                      .+...+-.+...+.+.|++++|++.|++.....  |+    ...+..+..++...|++++|...|++..+..+. | ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            356667777888899999999999999988764  33    458888999999999999999999999987432 2 245


Q ss_pred             hHHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCC-HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhh
Q 043969           82 TYNIVMCAKYR--------LGKLDQFHRLLDEMGRSGFSPD-FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLH  152 (300)
Q Consensus        82 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (300)
                      .+..+..++..        .|++++|...|+++.+..  |+ ......+.              .+..+...    -...
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~--------------~~~~~~~~----~~~~  150 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQ--------------KIRELRAK----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHH--------------HHHHHHHH----HHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHH--------------HHHHHHHH----HHHH
Confidence            67777788888        999999999999998763  43 22222211              11111110    1122


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC--ccccHHHHHHHHHhc----------CCHHHHHHHHHHHHHC
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANKGCMP--DVVCYTVMITSYIAA----------GELEKAQDLFDGMITK  214 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~----------~~~~~a~~~~~~~~~~  214 (300)
                      +..+...|.+.|++++|...|+.+.+.....  ....+..+..+|...          |++++|...|+++.+.
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            4556677778888888888888877652111  233566666666655          7788888888888775

>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=99.32  E-value=3.6e-10  Score=76.73  Aligned_cols=128  Identities=13%  Similarity=0.096  Sum_probs=66.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK  127 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (300)
                      |..+...+...|++++|..+++++.+.... +...+..+...+...|++++|...++++...+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            444555555555555555555555544322 34455555555555555555555555554443 2334445555555555


Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 043969          128 GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|...++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            555555555555555442 22344444555555555555555555555443

>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=99.30  E-value=3e-10  Score=77.13  Aligned_cols=131  Identities=12%  Similarity=0.044  Sum_probs=113.6

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAK   90 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (300)
                      ..|..+...+...|++++|...++++...+ +.+...+..+...+...|++++|...++++.+.+. .+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHH
Confidence            357778888999999999999999987764 34566888899999999999999999999988753 3677888899999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           91 YRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      ...|++++|.+.++.+.... +.+..++..+...+...|++++|...++++...
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999998764 456788889999999999999999999998875

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.30  E-value=1.5e-09  Score=80.41  Aligned_cols=176  Identities=15%  Similarity=0.073  Sum_probs=92.6

Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC----ChHHHHHHH
Q 043969           63 LIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD----KPLAALNLL  138 (300)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  138 (300)
                      +|.+.|++..+.|   ++..+..+...+...+++++|...|++..+.|   ++..+..|...|.. +    ++++|+++|
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            3455555555553   45556666666666666666666666665543   44555555555555 4    566666666


Q ss_pred             HHHHHcCCCCcHhhHHHHHHHHHh----CCCHHHHHHHHHHHHhCCCC-CccccHHHHHHHHHh----cCCHHHHHHHHH
Q 043969          139 NHMKEVGFDPSVLHFTTLMDGLSR----AGNLDACKYFFDEMANKGCM-PDVVCYTVMITSYIA----AGELEKAQDLFD  209 (300)
Q Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~  209 (300)
                      ++..+.|   +...+..+...|..    .+++++|...|+...+.+.. .+...+..|...|..    .+++++|...|+
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            6665543   34445555555554    55666666666655554311 013444555555554    445555555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhcc-C-----CHHHHHHHHHHHHHCC
Q 043969          210 GMITKGQLPNVFTYNSMIRGFCMA-G-----KFDEACTMMKEMESRG  250 (300)
Q Consensus       210 ~~~~~~~~p~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  250 (300)
                      +..+.+  .+...+..+...|... |     ++++|...++...+.|
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            555441  1223344444444321 1     4555555555555443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.28  E-value=1.5e-09  Score=83.66  Aligned_cols=183  Identities=10%  Similarity=0.068  Sum_probs=138.4

Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHhHHHHHHHHHhcCCChHHHHHHHHHHH
Q 043969           64 IEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPDFHTYNILLHVLGKGDKPLAALNLLNHMK  142 (300)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (300)
                      ++..|++....+ .++..++..+..++...|++++|++++.+....+- .-+...+..++..+.+.|+++.|.+.++.|.
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            778888888765 45666667888999999999999999999876652 1367788899999999999999999999998


Q ss_pred             HcCCCC-----cHhhHHHHHHHHH----hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          143 EVGFDP-----SVLHFTTLMDGLS----RAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       143 ~~~~~~-----~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      +.  .|     +..+...++.++.    ..++...|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
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            86  45     3555566665532    234899999999998765  35433344555588999999999999997665


Q ss_pred             CC---------CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH
Q 043969          214 KG---------QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF  255 (300)
Q Consensus       214 ~~---------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (300)
                      ..         -+-+..+...+|......|+  +|.++++++.+.  .|+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence            31         12366777567666666787  889999999985  4554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.28  E-value=4e-10  Score=83.22  Aligned_cols=57  Identities=9%  Similarity=0.036  Sum_probs=25.3

Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      +..++.+.|++++|+..|++..+.. |.+...+..+..++...|++++|...|+...+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  116 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQ  116 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444444432 22334444444444444444444444444444

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.27  E-value=1.6e-09  Score=80.23  Aligned_cols=180  Identities=10%  Similarity=-0.020  Sum_probs=146.7

Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC----CHHHHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG----NLDACKYF  172 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~  172 (300)
                      .+|.+.|++..+.|   ++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|...
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            34677888887764   77888889999999999999999999999875   56677778888887 6    89999999


Q ss_pred             HHHHHhCCCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhc----cCCHHHHHHHH
Q 043969          173 FDEMANKGCMPDVVCYTVMITSYIA----AGELEKAQDLFDGMITKGQL-PNVFTYNSMIRGFCM----AGKFDEACTMM  243 (300)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~----~~~~~~a~~~~  243 (300)
                      |+...+.|   +...+..+...|..    .+++++|...|++..+.|.. .+...+..|...|..    .+++++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998775   56677888888877    88999999999999887531 026788889999988    88999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHcChHH
Q 043969          244 KEMESRGCNPNFLVYNTLVSNLRNA-G-----KLAEAHEVIRHMVEKGKYI  288 (300)
Q Consensus       244 ~~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~~~~  288 (300)
                      ++..+.  ..+...+..|...|... |     +.++|..+|++..+.|...
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~  201 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDT  201 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHH
Confidence            999886  23455677777777653 3     8999999999999998433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.25  E-value=6.8e-10  Score=81.95  Aligned_cols=137  Identities=9%  Similarity=0.021  Sum_probs=79.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           86 VMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      +..++.+.|++++|+..+++..+.. |.+...+..+..++...|++++|+..|++..+.. |.+...+..+..+|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            6666777777777777777766654 3456666777777777777777777777776653 3345566666666554443


Q ss_pred             --HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          166 --LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIR  228 (300)
Q Consensus       166 --~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  228 (300)
                        .+.+...+.....  ..|....+.....++...|++++|...|++..+.  .|+......+.+
T Consensus       138 ~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l~~  198 (208)
T 3urz_A          138 QEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence              2334444444332  1222223333444555667777777777777663  456554444333

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.25  E-value=3.4e-10  Score=98.54  Aligned_cols=173  Identities=10%  Similarity=-0.042  Sum_probs=142.6

Q ss_pred             HccCcHHHHHHHHHHhh--------hCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc
Q 043969           56 LGIRQYKLIEWVYQQMS--------DEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK  127 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (300)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|+..++++.+.. +.+...|..+..++..
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            78899999999999998        443 3366788888899999999999999999998764 4577889999999999


Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHH
Q 043969          128 GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDL  207 (300)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  207 (300)
                      .|++++|+..|++..+.. +.+...+..+..++.+.|++++ ...|+...+.+ +.+...|..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998874 4466788899999999999999 99999988763 33567889999999999999999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHhccCC
Q 043969          208 FDGMITKGQLPN-VFTYNSMIRGFCMAGK  235 (300)
Q Consensus       208 ~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  235 (300)
                      |++..+..  |+ ...+..+..++...++
T Consensus       557 ~~~al~l~--P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTS--RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTS--TTHHHHHHHHHHHTC----
T ss_pred             HHhhcccC--cccHHHHHHHHHHHHccCC
Confidence            99987753  44 6677788888776554

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.24  E-value=2.1e-10  Score=99.82  Aligned_cols=173  Identities=8%  Similarity=-0.027  Sum_probs=143.1

Q ss_pred             hccccHHHHHHHHHHhh--------hcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           21 GEVGLARKVVERFIKSK--------LFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      ...|++++|++.+++..        ... +.+...+..+..++...|++++|+..|+++.+.... +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            67899999999999987        332 344568889999999999999999999999987543 78889999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHH
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYF  172 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (300)
                      .|++++|...|++..+.. +.+...+..+..++.+.|++++ ++.|++..+.. +.+...+..+..++.+.|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998875 4467888999999999999999 99999998874 44677899999999999999999999


Q ss_pred             HHHHHhCCCCCc-cccHHHHHHHHHhcCC
Q 043969          173 FDEMANKGCMPD-VVCYTVMITSYIAAGE  200 (300)
Q Consensus       173 ~~~~~~~~~~~~-~~~~~~li~~~~~~~~  200 (300)
                      |++..+.  .|+ ...+..+..++...++
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9998875  343 5567777777655444

>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=99.24  E-value=2.4e-10  Score=79.72  Aligned_cols=145  Identities=9%  Similarity=-0.096  Sum_probs=100.0

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcCH-HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPFK-NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG   94 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (300)
                      |...+...|++++|++.+......  .|+. ..+..+...|.+.|++++|++.|++.++..+. +..+|..+..++...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcC
Confidence            345566677888888888776553  3332 25666778888888888888888888876533 6778888888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHH-HHHHHHcCCCCcHhhHHHHHHHHHhCCC
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNL-LNHMKEVGFDPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (300)
                      ++++|...|++..+.. +-+..++..+...+.+.|+.++|.+. +++..+.. |-++..|......+...|+
T Consensus        80 ~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           80 NTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             chHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            8888888888887764 44567778888888888887765554 46666652 3355666666666655553

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.21  E-value=1e-09  Score=86.16  Aligned_cols=223  Identities=8%  Similarity=0.002  Sum_probs=129.5

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHc-cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG-IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHR  101 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (300)
                      .|++++|.+++++..+... ..          +.+ .++++.|...|.++               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            5677888888877654311 10          111 35566666665543               345566677777777


Q ss_pred             HHHHHHhC----CCCC-CHhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCC-cHhhHHHHHHHHHhCCCHHHHHH
Q 043969          102 LLDEMGRS----GFSP-DFHTYNILLHVLGKGDKPLAALNLLNHMKEV----GFDP-SVLHFTTLMDGLSRAGNLDACKY  171 (300)
Q Consensus       102 ~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~  171 (300)
                      .+.+....    +-++ -..+|..+...|...|++++|+..+++..+.    |-+. ...++..+...|.. |++++|..
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            76665332    1000 1335666667777777777777777765443    1111 13456666777777 88888877


Q ss_pred             HHHHHHhCCCC---C--ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCCHHHHHH
Q 043969          172 FFDEMANKGCM---P--DVVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLPN-VFTYNSMIRGFCMAGKFDEACT  241 (300)
Q Consensus       172 ~~~~~~~~~~~---~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~  241 (300)
                      .|++..+....   +  ...++..+...+.+.|++++|+..|++..+.    +..+. ...+..+..++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            77776543100   0  1345667777778888888888888776653    11111 2255666666777788888888


Q ss_pred             HHHHHHHCCCCCC------HHHHHHHHHHHHhcCCHHHHHH
Q 043969          242 MMKEMESRGCNPN------FLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       242 ~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      .|++.. .  .|+      ......++.++ ..|+.+.+.+
T Consensus       217 ~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            888777 3  221      12234444444 4566655544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.21  E-value=3.7e-09  Score=79.02  Aligned_cols=202  Identities=9%  Similarity=-0.030  Sum_probs=100.5

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCC-cC-HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH--hhHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFR-PF-KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI--LTYNIVM   87 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~   87 (300)
                      .+..+...+.+.|++++|+..|+++...... |. ...+..+..++.+.|++++|+..|+++.+..+....  ..+..+.
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            3444445555566666666666665543211 11 124555555666666666666666666554322111  1222222


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      .++...+..     .+            ..|..+...+...|++++|...|+++.+.. |-+..........        
T Consensus        86 ~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l--------  139 (225)
T 2yhc_A           86 LTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRL--------  139 (225)
T ss_dssp             HHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHH--------
T ss_pred             HHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHH--------
Confidence            333222110     00            011112222334567777777777777652 2222222211110        


Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP--NVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                        ..+...+.        .....+...+.+.|++++|+..|+++.+.....  ....+..+..++.+.|++++|.+.++.
T Consensus       140 --~~~~~~~~--------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~  209 (225)
T 2yhc_A          140 --VFLKDRLA--------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKI  209 (225)
T ss_dssp             --HHHHHHHH--------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHH--------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence              00000000        011345667788888888888888888753221  125677788888888899888888888


Q ss_pred             HHHC
Q 043969          246 MESR  249 (300)
Q Consensus       246 ~~~~  249 (300)
                      +...
T Consensus       210 l~~~  213 (225)
T 2yhc_A          210 IAAN  213 (225)
T ss_dssp             HHHC
T ss_pred             HHhh
Confidence            8775

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.21  E-value=4.2e-09  Score=78.67  Aligned_cols=183  Identities=11%  Similarity=-0.017  Sum_probs=120.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH--hh
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD----FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV--LH  152 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  152 (300)
                      +...+..+...+.+.|++++|...|+++.+..  |+    ...+..+..++.+.|++++|+..|+++.+.......  ..
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHH
Confidence            34556667778889999999999999988753  32    356777888899999999999999998876322111  13


Q ss_pred             HHHHHHHHHh------------------CCCHHHHHHHHHHHHhCCCCCccc-cHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          153 FTTLMDGLSR------------------AGNLDACKYFFDEMANKGCMPDVV-CYTVMITSYIAAGELEKAQDLFDGMIT  213 (300)
Q Consensus       153 ~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~  213 (300)
                      +..+..++..                  .|++++|...|+.+.+.  .|+.. .+......          ..+...+  
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l----------~~~~~~~--  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRL----------VFLKDRL--  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHH----------HHHHHHH--
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHH----------HHHHHHH--
Confidence            4444444443                  34555666666555544  23221 11111000          0000000  


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          214 KGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN----FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                            ......+...|.+.|++++|...|+++.+.  .|+    ...+..+..++.+.|+.++|.+.++.+...+
T Consensus       147 ------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ------AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                  011234567888999999999999999985  233    2567888899999999999999999988765

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.21  E-value=2.4e-08  Score=77.56  Aligned_cols=217  Identities=9%  Similarity=0.020  Sum_probs=104.7

Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH----hcC---CChH
Q 043969           62 KLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG--KLDQFHRLLDEMGRSGFSPDFHTYNILLHVL----GKG---DKPL  132 (300)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~  132 (300)
                      ++|+.+++.++..++. +..+|+.--..+...+  +++++++.++.+.... +-+..+|+.--..+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            3455555555544322 3444444444444444  5555555555554443 22333333332222    222   4555


Q ss_pred             HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH--HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC------HHHH
Q 043969          133 AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD--ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE------LEKA  204 (300)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------~~~a  204 (300)
                      +++.+++.+.+.. +-+..+|+.-.-.+.+.|.++  +++..++.+.+... -|...|+.-...+.+.++      ++++
T Consensus       128 ~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            5555555555542 334444444444444445544  55555555555432 244444444444444444      5566


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHH-HHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          205 QDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDE-ACTMMKEMESRG--CNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      ++.++++....+. |...|+.+-..+.+.|+... +..+..++.+.+  -..+...+..+..+|.+.|+.++|.++++.+
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            6666665555333 55556555555555554222 333444443321  1224455555666666666666666666666


Q ss_pred             HH
Q 043969          282 VE  283 (300)
Q Consensus       282 ~~  283 (300)
                      .+
T Consensus       285 ~~  286 (306)
T 3dra_A          285 KS  286 (306)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.20  E-value=5.7e-08  Score=75.51  Aligned_cols=229  Identities=8%  Similarity=0.004  Sum_probs=177.4

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccC--cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH----Hhc-
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIR--QYKLIEWVYQQMSDEGYAPDILTYNIVMCAK----YRL-   93 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~-   93 (300)
                      .+....++|++.++.+...+ +-+...|+.--..+...+  ++++++..++.+....++ +..+|+.--..+    ... 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcc
Confidence            33344578999999988874 333447888888888888  999999999999988655 666676555444    455 


Q ss_pred             --CCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChH--HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC----
Q 043969           94 --GKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPL--AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN----  165 (300)
Q Consensus        94 --~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  165 (300)
                        +++++++.+++.+.+.. +-+..+|+.-...+.+.|.++  ++++.++++.+.. +-+...|+.-...+...+.    
T Consensus       122 ~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             ccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchh
Confidence              78999999999998875 567888888888888888888  9999999999875 4477777776666667666    


Q ss_pred             --HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHH-HHHHHHHHHHCC--CCCCHHHHHHHHHHHhccCCHHHHH
Q 043969          166 --LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEK-AQDLFDGMITKG--QLPNVFTYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       166 --~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~  240 (300)
                        ++++++.++.+.... +-|...|+.+-..+.+.|+..+ +..+..++.+.+  -..+...+..+..+|.+.|+.++|.
T Consensus       200 ~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence              889999999888774 3477889888888888887444 556777665543  2347889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCH
Q 043969          241 TMMKEMESRGCNPNF  255 (300)
Q Consensus       241 ~~~~~~~~~~~~~~~  255 (300)
                      ++++.+.+. +.|..
T Consensus       279 ~~~~~l~~~-~Dpir  292 (306)
T 3dra_A          279 TVYDLLKSK-YNPIR  292 (306)
T ss_dssp             HHHHHHHHT-TCGGG
T ss_pred             HHHHHHHhc-cChHH
Confidence            999999863 34443

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.18  E-value=7.9e-10  Score=79.29  Aligned_cols=78  Identities=9%  Similarity=0.014  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      |...+++..+.. +.+...+..+...+...|++++|...|+.+.+....+ +...+..+...+...|+.++|...|++..
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            444555544432 2234445555555555555555555555555442211 12345555555555555555555555443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.17  E-value=2.1e-09  Score=91.77  Aligned_cols=154  Identities=11%  Similarity=-0.015  Sum_probs=117.0

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRL  102 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (300)
                      .|++++|.+.+++..... +.+...|..+...+...|++++|.+.+++..+.... +...+..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            468889999998877653 334668899999999999999999999999987533 678889999999999999999999


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC---CCHHHHHHHHHHHHhC
Q 043969          103 LDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA---GNLDACKYFFDEMANK  179 (300)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  179 (300)
                      +++..+.. +.+...+..+..++.+.|++++|.+.+++..+.. +.+...+..+...+...   |+.++|...+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99998774 4567889999999999999999999999998874 44677888899999999   9999999999998876


Q ss_pred             C
Q 043969          180 G  180 (300)
Q Consensus       180 ~  180 (300)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.17  E-value=1.5e-09  Score=84.34  Aligned_cols=168  Identities=9%  Similarity=-0.003  Sum_probs=131.9

Q ss_pred             CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHH-
Q 043969          112 SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTV-  190 (300)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  190 (300)
                      +.+...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++.....  .|+...... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            4456667778888889999999999999998873 446678888899999999999999999988765  344332222 


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcC
Q 043969          191 MITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN-PNFLVYNTLVSNLRNAG  269 (300)
Q Consensus       191 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g  269 (300)
                      ....+...++.++|...+++..+... .+...+..+...+...|++++|...++++.+.... .+...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P-~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENP-EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            22335677788888999988887643 37888999999999999999999999999886322 12567888999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 043969          270 KLAEAHEVIRHMVE  283 (300)
Q Consensus       270 ~~~~a~~~~~~~~~  283 (300)
                      +.++|...+++.+.
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999998887664

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.16  E-value=5.3e-10  Score=80.21  Aligned_cols=160  Identities=10%  Similarity=0.032  Sum_probs=84.9

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHH-HHhc
Q 043969          120 ILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITS-YIAA  198 (300)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~  198 (300)
                      .+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++......  |+...+...... +...
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhh
Confidence            33444555555555555555554431 2234445555555555555555555555554331  222111111111 1111


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHH
Q 043969          199 GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP-NFLVYNTLVSNLRNAGKLAEAHEV  277 (300)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~  277 (300)
                      ++..+|...+++..+... -+...+..+..++...|++++|...++++.+....+ +...+..+..++...|+.++|...
T Consensus        88 ~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~  166 (176)
T 2r5s_A           88 AAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASK  166 (176)
T ss_dssp             HTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHH
T ss_pred             cccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHH
Confidence            122235666666665422 246667777777777777777777777776653221 244666677777777777777777


Q ss_pred             HHHHHH
Q 043969          278 IRHMVE  283 (300)
Q Consensus       278 ~~~~~~  283 (300)
                      |++.+.
T Consensus       167 y~~al~  172 (176)
T 2r5s_A          167 YRRQLY  172 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.15  E-value=2.1e-09  Score=83.50  Aligned_cols=165  Identities=10%  Similarity=-0.039  Sum_probs=99.8

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHH-HHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFT-TLM  157 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~  157 (300)
                      +...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++++....  |+..... ...
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHH
Confidence            44555556666667777777777777766553 3345566666677777777777777777665542  2332222 222


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccCCH
Q 043969          158 DGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL-PNVFTYNSMIRGFCMAGKF  236 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~  236 (300)
                      ..+...++.+.|...++...... +.+...+..+...+...|++++|...|.++.+.... .+...+..++..+...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            23455566666666666666552 234556666677777777777777777776665322 1245666777777777777


Q ss_pred             HHHHHHHHHHH
Q 043969          237 DEACTMMKEME  247 (300)
Q Consensus       237 ~~a~~~~~~~~  247 (300)
                      ++|...+++..
T Consensus       272 ~~a~~~~r~al  282 (287)
T 3qou_A          272 DALASXYRRQL  282 (287)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            77766666544

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.15  E-value=2.9e-09  Score=90.95  Aligned_cols=155  Identities=10%  Similarity=-0.033  Sum_probs=119.0

Q ss_pred             cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHH
Q 043969           58 IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNL  137 (300)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (300)
                      .|++++|++.+++..+.... +...+..+...+...|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47889999999998876433 67889999999999999999999999998875 45678899999999999999999999


Q ss_pred             HHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc---CCHHHHHHHHHHHHHC
Q 043969          138 LNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA---GELEKAQDLFDGMITK  214 (300)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~  214 (300)
                      +++..+.. +.+...+..+..++.+.|++++|...++...+.. +.+...+..+..++...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99998874 4467889999999999999999999999998763 23567888899999999   9999999999999876


Q ss_pred             CC
Q 043969          215 GQ  216 (300)
Q Consensus       215 ~~  216 (300)
                      +.
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            43

>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=99.12  E-value=6.5e-10  Score=77.47  Aligned_cols=144  Identities=8%  Similarity=-0.068  Sum_probs=79.8

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ...+...|++++|+..++....... -+...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~p-~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSPR-QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSHH-HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            3344555666666666666554421 133445556666667777777777777666553 34556666666666677777


Q ss_pred             HHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHH-HHHHHhCCCCCccccHHHHHHHHHhcC
Q 043969          132 LAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYF-FDEMANKGCMPDVVCYTVMITSYIAAG  199 (300)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~~  199 (300)
                      ++|+..|++..+.. +-+...+..+...|.+.|+.+++... ++...+.. +-+...|......+...|
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            77777776666652 33455666666666666666544433 35554431 113334444444443333

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.12  E-value=1.2e-09  Score=85.79  Aligned_cols=200  Identities=11%  Similarity=-0.020  Sum_probs=146.4

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHH
Q 043969           57 GIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALN  136 (300)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (300)
                      ..|++++|.+++++..+.... .      +   +...+++++|...|.+.               ...|...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            457788899888887764211 1      0   11157888888888765               446778899999999


Q ss_pred             HHHHHHHc----CCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC----CCCC-ccccHHHHHHHHHhcCCHHHHHH
Q 043969          137 LLNHMKEV----GFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANK----GCMP-DVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       137 ~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      .|.+..+.    +-++ ...+|+.+...|...|++++|...|+...+.    |-.. ...++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            99887653    1111 1357888889999999999999999887543    2111 13567788888888 99999999


Q ss_pred             HHHHHHHCCCC---C--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 043969          207 LFDGMITKGQL---P--NVFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNPN-FLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       207 ~~~~~~~~~~~---p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      .|++..+....   +  ...++..+...|.+.|++++|+..+++..+.    +..++ ...+..+..++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99988754111   1  1467888999999999999999999998863    22121 2356666777888899999999


Q ss_pred             HHHHHH
Q 043969          277 VIRHMV  282 (300)
Q Consensus       277 ~~~~~~  282 (300)
                      .|++..
T Consensus       217 ~~~~al  222 (307)
T 2ifu_A          217 CVRESY  222 (307)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999987

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.11  E-value=1.3e-07  Score=73.64  Aligned_cols=163  Identities=13%  Similarity=0.113  Sum_probs=112.9

Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHcCC-CCcH----hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC-c----cccHHH
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEVGF-DPSV----LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP-D----VVCYTV  190 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~~  190 (300)
                      .+..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|...++...+..... +    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35567778888888888888776421 2221    123346666777778888888888887642221 2    125788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCCC-HHHHH
Q 043969          191 MITSYIAAGELEKAQDLFDGMITK-----GQLPN-VFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNPN-FLVYN  259 (300)
Q Consensus       191 li~~~~~~~~~~~a~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~  259 (300)
                      +..+|...|++++|...|+++.+.     +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..++.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888888888888888887741     11112 346788888899999999999988877642    22222 56778


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHH
Q 043969          260 TLVSNLRNAG-KLAEAHEVIRHMVE  283 (300)
Q Consensus       260 ~li~~~~~~g-~~~~a~~~~~~~~~  283 (300)
                      .+..++.+.| ++++|.+.+++..+
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            8888888888 46889888888765

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.07  E-value=1.6e-07  Score=73.06  Aligned_cols=164  Identities=8%  Similarity=-0.051  Sum_probs=123.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH----hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCC-Cc----HhhHH
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRSGF-SPDF----HTYNILLHVLGKGDKPLAALNLLNHMKEVGFD-PS----VLHFT  154 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  154 (300)
                      ..+..+...|++++|..++++...... .|+.    ..+..+...+...+++++|+..+++..+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346778899999999999999876431 1221    13335667778888999999999999874322 22    23688


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC-----CCCCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-HHHH
Q 043969          155 TLMDGLSRAGNLDACKYFFDEMANK-----GCMPD-VVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLPN-VFTY  223 (300)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~  223 (300)
                      .+...|...|++++|...|+...+.     +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            9999999999999999999998741     11222 347888999999999999999999987653    22222 6788


Q ss_pred             HHHHHHHhccC-CHHHHHHHHHHHHH
Q 043969          224 NSMIRGFCMAG-KFDEACTMMKEMES  248 (300)
Q Consensus       224 ~~l~~~~~~~~-~~~~a~~~~~~~~~  248 (300)
                      ..+..+|...| ++++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999999 57999999888764

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.07  E-value=3.2e-08  Score=73.00  Aligned_cols=128  Identities=10%  Similarity=-0.040  Sum_probs=96.7

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKY   91 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (300)
                      .+..+...+...|++++|++.+.+..    .|+...|..+...+...|++++|...|++..+... .+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHH
Confidence            34556667777888888888888763    45667888888888888888888888888877643 36677888888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH----------------hHHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDF----------------HTYNILLHVLGKGDKPLAALNLLNHMKEVG  145 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (300)
                      ..|++++|...++...+.. +.+.                ..+..+..++...|++++|...+++..+..
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            8888888888888887653 2222                567777777888888888888888877653

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.03  E-value=5.4e-08  Score=71.76  Aligned_cols=128  Identities=7%  Similarity=-0.116  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+..+...+...|++++|...|++..    .|+...+..+...+...|++++|...+++..... +.+...+..+..++.
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            45566777888899999999998774    5577888888999999999999999999887764 456778888888999


Q ss_pred             cCCChHHHHHHHHHHHHcCCC--------------C-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          127 KGDKPLAALNLLNHMKEVGFD--------------P-SVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ..|++++|...+++..+....              | ....+..+..++...|++++|...|+...+.
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            999999999999988875311              1 1256777888888889999999888888776

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.01  E-value=1.2e-07  Score=73.87  Aligned_cols=167  Identities=10%  Similarity=0.059  Sum_probs=111.8

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH-----hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC---Cc--cc
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV-----LHFTTLMDGLSRAGNLDACKYFFDEMANKGCM---PD--VV  186 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~  186 (300)
                      .+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|...++...+....   +.  ..
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            4445566677778888888888777664322111     22334555667778888888888877643211   11  34


Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHH---C-CCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC-CH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMIT---K-GQLP--NVFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNP-NF  255 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~---~-~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~  255 (300)
                      +++.+...|...|++++|...+++..+   . +..+  ...++..+...|...|++++|...+++..+.    +... -.
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            677888888888888888888888762   2 1111  1257788888888999999999888887653    1111 15


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 043969          256 LVYNTLVSNLRNAGKLAEA-HEVIRHMVE  283 (300)
Q Consensus       256 ~~~~~li~~~~~~g~~~~a-~~~~~~~~~  283 (300)
                      .+|..+..+|.+.|+.++| ...+++..+
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6777888888888998888 777777653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=2e-07  Score=72.47  Aligned_cols=166  Identities=7%  Similarity=-0.062  Sum_probs=96.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC---CCc--Hh
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD-----FHTYNILLHVLGKGDKPLAALNLLNHMKEVGF---DPS--VL  151 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  151 (300)
                      .+...+..+...|++++|.+.+....+.....+     ...+..+...+...|++++|+..+++..+...   .+.  ..
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            344455566666777777666666554421111     11233445556666777777777776654311   111  33


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHh---C-CCCC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CH
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMAN---K-GCMP--DVVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLP-NV  220 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~  220 (300)
                      +++.+...|...|++++|...|+...+   . +..+  ...++..+...|...|++++|+..+++..+.    +..+ -.
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            666777777777777777777776652   1 1111  1146667777777777777777777766542    1111 14


Q ss_pred             HHHHHHHHHHhccCCHHHH-HHHHHHHH
Q 043969          221 FTYNSMIRGFCMAGKFDEA-CTMMKEME  247 (300)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~  247 (300)
                      .+|..+..+|...|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5677777777777777777 66566554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.98  E-value=2.7e-08  Score=66.90  Aligned_cols=96  Identities=11%  Similarity=-0.029  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+......+.+.|++++|++.|++.++..+. +...|..+..++.+.|++++|+..+++..+.. +.+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            5666677777777777777777777665432 56667777777777777777777777766654 345666777777777


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            777777777777777665

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.98  E-value=9.4e-08  Score=82.43  Aligned_cols=221  Identities=9%  Similarity=0.003  Sum_probs=165.5

Q ss_pred             HHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH-HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHH
Q 043969           62 KLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH-RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNH  140 (300)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (300)
                      +.+..+|++++..- +-....|...+..+...|+.++|. ++++..... +|.+...|...+....+.|+++.|.++|+.
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            34566787777653 336778888888888889988996 999998864 355666778888888899999999999999


Q ss_pred             HHHcCC---------CC------------cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc-
Q 043969          141 MKEVGF---------DP------------SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA-  198 (300)
Q Consensus       141 ~~~~~~---------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  198 (300)
                      +.+...         .|            ....|...+....+.|..+.|..+|....+....+....|...+..-.+. 
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhC
Confidence            876410         12            12367788888888999999999999998751112233444433333344 


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHH
Q 043969          199 GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP--NFLVYNTLVSNLRNAGKLAEAHE  276 (300)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~  276 (300)
                      ++.+.|..+|+...+. .+-+...|...+......|+.+.|..+|++.......+  ....|...+..-.+.|+.+.+.+
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4589999999999886 33466777788888888999999999999998763221  34567777777788899999999


Q ss_pred             HHHHHHHcC
Q 043969          277 VIRHMVEKG  285 (300)
Q Consensus       277 ~~~~~~~~~  285 (300)
                      +.+++.+.-
T Consensus       563 v~~R~~~~~  571 (679)
T 4e6h_A          563 LEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhC
Confidence            999998765

>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=98.95  E-value=8.3e-08  Score=67.58  Aligned_cols=128  Identities=11%  Similarity=0.032  Sum_probs=75.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC  231 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (300)
                      .+..+...+...|++++|...|+...+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++.
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            34555556666666666666666665542 2245556666666666677777777776666543 225566666667777


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 043969          232 MAGKFDEACTMMKEMESRGCNPNFLVYN--TLVSNLRNAGKLAEAHEVIRHMV  282 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~a~~~~~~~~  282 (300)
                      ..|++++|...+++..+.. +.+...+.  .....+...|++++|.+.+.+..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777777777766542 12333332  22333556677777777766554

>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=98.95  E-value=5.5e-07  Score=70.84  Aligned_cols=221  Identities=12%  Similarity=0.044  Sum_probs=125.9

Q ss_pred             CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcC-C-ChHHHH
Q 043969           59 RQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG-KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKG-D-KPLAAL  135 (300)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~  135 (300)
                      +..++|+++++.++...+. +..+|+.--..+...+ ++++++..++.+.... +-+..+|+.-...+.+. + ++++++
T Consensus        68 e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL  145 (349)
T 3q7a_A           68 EKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEI  145 (349)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHH
T ss_pred             CCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHH
Confidence            3345677777777666433 4555665555555566 4777777777776654 33555566555555444 4 666777


Q ss_pred             HHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH--------HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC-------
Q 043969          136 NLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD--------ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE-------  200 (300)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-------  200 (300)
                      ++++.+.+.. +-+...|+.-...+.+.+.++        ++++.++.+.+... -|...|+.....+.+.++       
T Consensus       146 ~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          146 EYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHH
Confidence            7777766553 334555544333333333333        66667776666532 255666666666666554       


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH--------------------HHHHHHHHHHHHCC-----CCCCH
Q 043969          201 LEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF--------------------DEACTMMKEMESRG-----CNPNF  255 (300)
Q Consensus       201 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~~~~~  255 (300)
                      ++++++.+++....... |...|+-+-..+.+.|+.                    ........++...+     -.++.
T Consensus       224 ~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          224 LQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence            56777777777665433 666666555555444432                    22333333332221     12466


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          256 LVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       256 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..+..++..|...|+.++|.++++.+.+.
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            67777778888888888888888887643

>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=98.95  E-value=1.3e-06  Score=68.77  Aligned_cols=235  Identities=9%  Similarity=0.018  Sum_probs=170.3

Q ss_pred             HHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc-C-
Q 043969           18 CTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIR-QYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL-G-   94 (300)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-   94 (300)
                      ....+.+..++|+++++++...+ +-+..+|+.--..+...+ .+++++.+++.+....++ +..+|+.-...+... + 
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~  139 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQ  139 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCS
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCC
Confidence            33344556678999999998874 334447887777777778 599999999999998765 788888877777776 6 


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChH--------HHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC-
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPL--------AALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN-  165 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  165 (300)
                      ++++++++++.+.+.. +-+..+|+.-...+.+.+.++        ++++.++++.+.. +-+...|+.....+.+.+. 
T Consensus       140 ~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTC
T ss_pred             ChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccc
Confidence            8899999999998775 557778877666665555555        8999999998875 4577788888777777776 


Q ss_pred             ------HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCH--------------------HHHHHHHHHHHHCC----
Q 043969          166 ------LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGEL--------------------EKAQDLFDGMITKG----  215 (300)
Q Consensus       166 ------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~--------------------~~a~~~~~~~~~~~----  215 (300)
                            ++++++.++...... +-|...|+.+-..+.+.|+.                    ....++..++...+    
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPED  296 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSS
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccc
Confidence                  688888888887763 34677787777777666653                    33344444443322    


Q ss_pred             -CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 043969          216 -QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVY  258 (300)
Q Consensus       216 -~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  258 (300)
                       ..++......++..|...|+.++|.++++.+.+. ..|-..-|
T Consensus       297 ~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~-~dpir~~y  339 (349)
T 3q7a_A          297 TPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE-YDQMRAGY  339 (349)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGGGHHH
T ss_pred             cCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh-hChHHHHH
Confidence             1367889999999999999999999999998764 34444333

>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=98.94  E-value=8.6e-08  Score=67.49  Aligned_cols=127  Identities=9%  Similarity=-0.092  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+..+...+...|++++|...|++..+.... +..++..+...+...|++++|...+++..... +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            4555556666666666666666666654322 45556666666666666666666666665543 334555556666666


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhhH--HHHHHHHHhCCCHHHHHHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLHF--TTLMDGLSRAGNLDACKYFFDEM  176 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~  176 (300)
                      ..|++++|...+++..+.. +.+...+  ......+...|++++|...+...
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            6666666666666665542 2222233  22222244555555555555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.93  E-value=8.3e-09  Score=71.70  Aligned_cols=96  Identities=8%  Similarity=-0.046  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+..+...+.+.|++++|+..|+++.+..+. +...|..+..++...|++++|+..|++..... |.++..|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            6667777777778888888888877776433 67777777777777888888888887777664 445667777777777


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|++++|...|++..+.
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            788888888888777775

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.93  E-value=3.3e-08  Score=66.48  Aligned_cols=111  Identities=6%  Similarity=-0.098  Sum_probs=93.3

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ...+......+.+.|++++|++.|++....+ +.+...|..+..++.+.|++++|+..|++.++..+. +...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHH
Confidence            4567788899999999999999999988775 456779999999999999999999999999987544 78889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +...|++++|.+.|++..+.. |.+...+..+-.
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l~~  123 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD-PSNEEAREGVRN  123 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-cCCHHHHHHHHH
Confidence            999999999999999998874 334555544433

>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=98.93  E-value=2e-08  Score=77.67  Aligned_cols=194  Identities=8%  Similarity=-0.101  Sum_probs=113.8

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      .+...+..+...+.+.|++++|+..+.+..... +.+...|..+..++.+.|++++|...+++..+..+. +...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            355667777778888888888888888877653 235567778888888888888888888888776433 667777778


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH-hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDF-HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      .++...|++++|...++...+..  |+. ..+...+....+   ...+. .+........+.+......+.. + ..|+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~i~~~l~~-l-~~~~~  151 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKK-RWNSIEERRIHQESELHSYLTR-L-IAAER  151 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHH-HHHHHHHTCCCCCCHHHHHHHH-H-HHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHH-HHHHHHHHHHhhhHHHHHHHHH-H-HHHHH
Confidence            88888888888888887775542  211 111111111111   11111 1222222323333333333322 2 25777


Q ss_pred             HHHHHHHHHHHhCCCCCcc-ccHHHHHHHHHhc-CCHHHHHHHHHHHHH
Q 043969          167 DACKYFFDEMANKGCMPDV-VCYTVMITSYIAA-GELEKAQDLFDGMIT  213 (300)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~-~~~~~a~~~~~~~~~  213 (300)
                      ++|.+.++...+.  .|+. .....+-..+.+. +.+++|.++|.+..+
T Consensus       152 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          152 ERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777777666654  3332 2233333333343 567778888877654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.92  E-value=2.2e-08  Score=73.21  Aligned_cols=133  Identities=11%  Similarity=-0.036  Sum_probs=59.9

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhC----CCC-CccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC--C
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANK----GCM-PDVVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLP--N  219 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p--~  219 (300)
                      ..+..+...+...|++++|...+++....    +.. .....+..+...+...|++++|...+++..+.    +..|  .
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  106 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAA  106 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            33444444444444444444444443321    101 11233444444555555555555555544332    1011  1


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          220 VFTYNSMIRGFCMAGKFDEACTMMKEMESR----GCNP-NFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ...+..+...+...|++++|...+++..+.    +..+ ...++..+...+...|++++|.+.+++..+
T Consensus       107 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          107 SANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            233455555555556666666555555431    1100 012234555556666666666666665554

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.92  E-value=2.2e-07  Score=80.16  Aligned_cols=234  Identities=7%  Similarity=-0.057  Sum_probs=170.3

Q ss_pred             HHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHH-HHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 043969           27 RKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIE-WVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDE  105 (300)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  105 (300)
                      +.+..+|++..... +-....|...+..+...|+.+.|. ++|++..... +.+...|...+...-+.|+++.|.++|+.
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            44566777766542 345558888888888889988996 9999998753 34666777788888889999999999999


Q ss_pred             HHhCC---------CCCC------------HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC-
Q 043969          106 MGRSG---------FSPD------------FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA-  163 (300)
Q Consensus       106 ~~~~~---------~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  163 (300)
                      +....         -.|+            ..+|...+....+.|..+.|.++|.+..+.........|...+..-.+. 
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhC
Confidence            87531         0132            3467888888888899999999999998761112233444333333333 


Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhccCCHHHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP--NVFTYNSMIRGFCMAGKFDEACT  241 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~  241 (300)
                      ++.+.|..+|+...+. .+.+...|...+......|+.+.|..+|++.......+  ....|...+..-.+.|+.+.+..
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5699999999998876 33355667788888888999999999999998764322  34678888888889999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          242 MMKEMESRGCNPNFLVYNTLVSNL  265 (300)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~li~~~  265 (300)
                      +.+++.+.  .|+......++.-|
T Consensus       563 v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          563 LEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHHHHh--CCCCcHHHHHHHHh
Confidence            99999986  34444444444433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.92  E-value=2.9e-08  Score=72.51  Aligned_cols=27  Identities=4%  Similarity=-0.026  Sum_probs=12.9

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEM  106 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (300)
                      ..++..+...+...|++++|...+++.
T Consensus        26 ~~~~~~l~~~~~~~g~~~~A~~~~~~a   52 (203)
T 3gw4_A           26 SGARFMLGYVYAFMDRFDEARASFQAL   52 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            334444444444555555555544444

>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=98.91  E-value=2.9e-08  Score=71.00  Aligned_cols=120  Identities=5%  Similarity=-0.025  Sum_probs=65.1

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH-HhcCCCh--HH
Q 043969           57 GIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV-LGKGDKP--LA  133 (300)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~  133 (300)
                      ..|++++|...++...+..+ .+...+..+...+...|++++|...+++..... +.+...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            34555566666655555432 245555556666666666666666666655443 2344455555555 5555665  66


Q ss_pred             HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      |...+++..+.. +.+...+..+...+...|++++|...|+...+.
T Consensus       100 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            666666665542 233455555566666666666666666666554

>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=98.91  E-value=3.4e-08  Score=76.39  Aligned_cols=193  Identities=9%  Similarity=-0.031  Sum_probs=118.2

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           44 FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      +...+..+...+...|++++|...|++..+..+. +...|..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3456777888888888999999888888876433 67788888888888889999988888887764 445677888888


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcH-hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSV-LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                      ++...|++++|...|++..+..  |+. ..+...+....+.   .++.. +..........+......+ ..+ ..|+++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l-~~l-~~~~~~  152 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYL-TRL-IAAERE  152 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHH-HHH-HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHH-HHH-HHHHHH
Confidence            8888888888888888876642  111 1111111111111   11111 1222222223333333333 222 367788


Q ss_pred             HHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcc-CCHHHHHHHHHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVF-TYNSMIRGFCMA-GKFDEACTMMKEMES  248 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~-~~~~~a~~~~~~~~~  248 (300)
                      +|.+.++...+.  .|+.. ....+...+.+. +.+++|.++|....+
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            888887776654  34433 333333333333 567778888876654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.91  E-value=1.1e-07  Score=63.29  Aligned_cols=96  Identities=13%  Similarity=0.060  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .|..+...+...|++++|.+.++++.+... .+..++..+...+...|++++|...++++.... +.+..++..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            445555555555555555555555554421 234445555555555555555555555554432 234444555555555


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|++++|...++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            555555555555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.89  E-value=6.3e-08  Score=65.39  Aligned_cols=116  Identities=8%  Similarity=-0.048  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ...|..+...+...|++++|...|++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            335555566666666666666666665554322 45555555566666666666666666655543 3345555566666


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      +...|++++|.+.+++..+.. +.+...+..+..++...
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            666666666666666665542 22333444444444433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.89  E-value=8.5e-08  Score=63.82  Aligned_cols=114  Identities=12%  Similarity=0.040  Sum_probs=94.1

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      ...+..+...+...|++++|.+.++++.... +.+..++..+...+...|++++|...++++.+... .+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHH
Confidence            5678888899999999999999999988764 34566889999999999999999999999988753 367888899999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      +...|++++|...++++.... +.+...+..+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            999999999999999998764 345555555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.89  E-value=1e-07  Score=64.37  Aligned_cols=117  Identities=10%  Similarity=-0.032  Sum_probs=61.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..
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            34455555555556666666666666555442 2344555555555666666666666666555542 234455555555


Q ss_pred             HHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc
Q 043969          159 GLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA  198 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  198 (300)
                      ++...|++++|...++...+.. +.+...+..+..++...
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            5666666666666665555432 11233444444444433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.89  E-value=4.2e-08  Score=65.98  Aligned_cols=119  Identities=8%  Similarity=0.008  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ...+..+...+...|++++|...+++..+... .+...+..+...+...|++++|...++...... +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            33566666677777777777777777766532 256666667777777777777777777766653 3446666777777


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969          125 LGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      +...|++++|...+++..+.. +.+...+..+..++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            777777777777777776653 33455566666666665543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.88  E-value=1.2e-07  Score=65.82  Aligned_cols=95  Identities=11%  Similarity=0.053  Sum_probs=47.7

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFC  231 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (300)
                      .+..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|+..|++..+.... +...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHH
Confidence            34444445555555555555555554442 223444555555555555555555555555544221 3444555555555


Q ss_pred             ccCCHHHHHHHHHHHHH
Q 043969          232 MAGKFDEACTMMKEMES  248 (300)
Q Consensus       232 ~~~~~~~a~~~~~~~~~  248 (300)
                      ..|++++|...|++..+
T Consensus       116 ~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.88  E-value=8.7e-08  Score=64.35  Aligned_cols=118  Identities=4%  Similarity=-0.063  Sum_probs=59.0

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...
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            3344445555555555555555555554432 2344455555555555555555555555555442 2234445555555


Q ss_pred             HHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC
Q 043969          160 LSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE  200 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  200 (300)
                      +...|++++|...++...+.. +.+...+..+..++...|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            555555555555555554432 1133344444444444443

>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=98.86  E-value=2.8e-08  Score=71.08  Aligned_cols=123  Identities=11%  Similarity=0.043  Sum_probs=100.5

Q ss_pred             hhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH-HHhcCCH--
Q 043969           20 CGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA-KYRLGKL--   96 (300)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--   96 (300)
                      +...|++++|.+.+.+..... +.+...|..+...+...|++++|...|++..+..+. +...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcch
Confidence            456788999999998877664 445678999999999999999999999999887533 67788888888 7789998  


Q ss_pred             HHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVG  145 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (300)
                      ++|...++...... +.+...+..+...+...|++++|...+++..+..
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            99999999998875 4567888899999999999999999999998863

>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=98.85  E-value=1.3e-07  Score=75.12  Aligned_cols=131  Identities=7%  Similarity=-0.027  Sum_probs=78.1

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc--------------cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD--------------VVCYTVMITSYIAAGELEKAQDLFDGMITKGQ  216 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  216 (300)
                      ..+..+...+.+.|++++|...|+...+......              ...|..+..++.+.|++++|+..+++..+...
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  227 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS  227 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3444555555555555555555555544321110              35666666777777777777777777666532


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 043969          217 LPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEA-HEVIRHMVE  283 (300)
Q Consensus       217 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  283 (300)
                       .+...+..+..+|...|++++|...|++..+.. +.+...+..+..++...|+.++| ...+++|.+
T Consensus       228 -~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          228 -NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             256667777777777777777777777776642 22455666666666677777666 345555543

>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=98.85  E-value=1.3e-05  Score=62.85  Aligned_cols=232  Identities=11%  Similarity=0.009  Sum_probs=156.2

Q ss_pred             HccCcHH-HHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           56 LGIRQYK-LIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK----------LDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        56 ~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      .+.|.++ +|+.+++.++..++. +..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-...
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3455554 688888888877543 45556544333333322          577888888887764 4467777777777


Q ss_pred             HhcCC--ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC-HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc---
Q 043969          125 LGKGD--KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN-LDACKYFFDEMANKGCMPDVVCYTVMITSYIAA---  198 (300)
Q Consensus       125 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---  198 (300)
                      +.+.+  .+++++.+++.+.+.. +-+...|+.-...+...|. +++++..+..+.+.. +-|...|+.....+.+.   
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhc
Confidence            77766  4788888888888874 4466777766666677777 588888888888764 33666777666665554   


Q ss_pred             -----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-----------CCHHHHHHHHHHHHHCCCCCCH-
Q 043969          199 -----------GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA-----------GKFDEACTMMKEMESRGCNPNF-  255 (300)
Q Consensus       199 -----------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~-  255 (300)
                                 +.++++++.+.+.....+. |...|+-+-..+.+.           +.++++++.++++.+.  .|+. 
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~~  272 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPENK  272 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Ccccc
Confidence                       4578899999988876443 777776555444444           4578899999999985  4543 


Q ss_pred             HHHHHHH---HHHHhcCCHHHHHHHHHHHHHcC-----hHHHHHHHh
Q 043969          256 LVYNTLV---SNLRNAGKLAEAHEVIRHMVEKG-----KYIHLVSKF  294 (300)
Q Consensus       256 ~~~~~li---~~~~~~g~~~~a~~~~~~~~~~~-----~~~~l~~~~  294 (300)
                      -.+..++   ......|..+++...+.++++-+     .|.++.+.+
T Consensus       273 w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~  319 (331)
T 3dss_A          273 WCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKF  319 (331)
T ss_dssp             HHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence            2222221   22234678889999999998765     677766554

>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=98.81  E-value=1.9e-07  Score=74.12  Aligned_cols=94  Identities=11%  Similarity=-0.016  Sum_probs=51.4

Q ss_pred             hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHH
Q 043969          116 HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY  195 (300)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (300)
                      ..|..+..++.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|+...+.. +.+...+..+..++
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            455555556666666666666666655542 3344555555566666666666666666555542 12344555555555


Q ss_pred             HhcCCHHHH-HHHHHHH
Q 043969          196 IAAGELEKA-QDLFDGM  211 (300)
Q Consensus       196 ~~~~~~~~a-~~~~~~~  211 (300)
                      ...|+.++| ...|+.|
T Consensus       275 ~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          275 QRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            566666555 3344444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.80  E-value=3.3e-07  Score=69.78  Aligned_cols=187  Identities=7%  Similarity=-0.050  Sum_probs=120.6

Q ss_pred             ccccHHHHHHHHHHhhhcCCCcCHHHHHHH-------HHHHHccCcHHHHHHHHHHhhhCCCCCC---------------
Q 043969           22 EVGLARKVVERFIKSKLFNFRPFKNSYNAI-------LHALLGIRQYKLIEWVYQQMSDEGYAPD---------------   79 (300)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   79 (300)
                      ..++...|.+.|.+....+ +-....|..+       ...+.+.++..+++..++.-.+  +.|+               
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            5788999999999887764 2334477766       4555555555555555555443  2221               


Q ss_pred             -------HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc--H
Q 043969           80 -------ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPS--V  150 (300)
Q Consensus        80 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  150 (300)
                             ....-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1122345566778888888888888776543  443355555557778888888888887554431 111  2


Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...
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            3566677778888888888888887765432243  234555666777888888888888888775

>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=98.80  E-value=4.9e-08  Score=67.69  Aligned_cols=95  Identities=11%  Similarity=-0.064  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+..+...+...|++++|...|++..+..+. +...|..+..++...|++++|+..+++..... +.+...+..+..++.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            4444455555555555555555555544322 44455555555555555555555555554442 223444455555555


Q ss_pred             cCCChHHHHHHHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKE  143 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~  143 (300)
                      ..|++++|...|++..+
T Consensus       101 ~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.80  E-value=1.6e-07  Score=71.46  Aligned_cols=187  Identities=6%  Similarity=-0.159  Sum_probs=94.0

Q ss_pred             ccCcHHHHHHHHHHhhhCCCCCCHhhHHHH-------HHHHHhcCCHHHHHHHHHHHHhCCCCCC---------------
Q 043969           57 GIRQYKLIEWVYQQMSDEGYAPDILTYNIV-------MCAKYRLGKLDQFHRLLDEMGRSGFSPD---------------  114 (300)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  114 (300)
                      ..++...|.+.|.++.+..+. ....|..+       ...+.+.++..++...+..-..  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            467777777777777776433 45566555       2333333333333333333222  1221               


Q ss_pred             -------HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc--c
Q 043969          115 -------FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD--V  185 (300)
Q Consensus       115 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  185 (300)
                             ....-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1122233445555666666666666655432  222233344445566666666666665433321 110  1


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN--VFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ..+..+-.++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
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            2445555556666666666666666553322132  234444555556666666666666666654

>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=98.79  E-value=9.1e-08  Score=66.30  Aligned_cols=99  Identities=9%  Similarity=-0.046  Sum_probs=73.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      +...+..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|+..|++..... +.+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            45566666777778888888888888877664 4466777777778888888888888888877763 335566777777


Q ss_pred             HHHhCCCHHHHHHHHHHHHhC
Q 043969          159 GLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ++...|++++|...|+...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            888888888888888777654

>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=98.78  E-value=2.3e-08  Score=72.99  Aligned_cols=145  Identities=4%  Similarity=-0.185  Sum_probs=69.9

Q ss_pred             HhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC---------------HhhH
Q 043969           19 TCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD---------------ILTY   83 (300)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~   83 (300)
                      .....++++++.+.++...... ......+..+...+...|++++|...|++..+......               ...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             ---------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            3334455555555554322210 11233566677777788888888888888776532211               1444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ..+..++...|++++|+..++...... +.+...+..+..++...|++++|...|++..+.. +.+...+..+..++...
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHH
Confidence            455555555555555555555554442 2344455555555555555555555555554442 22333444444444433


Q ss_pred             CCH
Q 043969          164 GNL  166 (300)
Q Consensus       164 ~~~  166 (300)
                      ++.
T Consensus       170 ~~~  172 (198)
T 2fbn_A          170 KEA  172 (198)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.75  E-value=2.4e-06  Score=70.11  Aligned_cols=164  Identities=9%  Similarity=-0.079  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH----hHHHHHHHHHhcCCChHHHHHHHHHHHHc----CCCC-cHhh
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPDF----HTYNILLHVLGKGDKPLAALNLLNHMKEV----GFDP-SVLH  152 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  152 (300)
                      +..+...|...|++++|.+.+..+...-- .++.    .+.+.+-..+...|+++.+..++......    +..+ -..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            34445555555555555555554432100 0111    11222223333445555555555544321    1111 1234


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhC--CC--CC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HH
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANK--GC--MP-DVVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLPN--VF  221 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~  221 (300)
                      +..+...|...|++++|..+++.....  +.  .+ ....+..++..|...|++++|..++++....    +.+|.  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            455555555566666666555554321  10  01 1234555555555666666666655554321    11111  13


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      .+..+...+...+++++|...|.+.
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            3444445555555655555554444

>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=98.75  E-value=3.5e-08  Score=72.03  Aligned_cols=133  Identities=14%  Similarity=0.106  Sum_probs=81.5

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC-C--------------ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 043969          151 LHFTTLMDGLSRAGNLDACKYFFDEMANKGCM-P--------------DVVCYTVMITSYIAAGELEKAQDLFDGMITKG  215 (300)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~--------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  215 (300)
                      ..+..+...+...|++++|...|+...+.... |              ....+..+..++...|++++|+..+++..+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34455555666666666666666666553111 1              02567777777888888888888888877763


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHcC
Q 043969          216 QLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAH-EVIRHMVEKG  285 (300)
Q Consensus       216 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~~~~~~  285 (300)
                       +.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++...++.+++. ..+..+...+
T Consensus       119 -p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          119 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             -cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence             2367778888888888888888888888887652 234566666666777777766666 5555555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.75  E-value=1.6e-07  Score=64.55  Aligned_cols=96  Identities=7%  Similarity=-0.116  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+..+...+...|++++|...|++..+..+. +...|..+..++...|++++|...++...... +.++..+..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            5555666666777777777777777665432 56666666677777777777777777766654 345556666666777


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|++++|...|+...+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777777777777766654

>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=98.74  E-value=5.2e-07  Score=60.43  Aligned_cols=95  Identities=11%  Similarity=-0.036  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .|......+.+.|++++|...|++..+..+. +...|..+..++.+.|++++|+..+++..+.. +.+...+..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            4445555555556666666666555554322 45555555555556666666666665555543 334445555555555


Q ss_pred             cCCChHHHHHHHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKE  143 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~  143 (300)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            56666666655555544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.74  E-value=1.7e-06  Score=70.97  Aligned_cols=167  Identities=8%  Similarity=-0.082  Sum_probs=120.8

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcC-CCCcH----hhHHHHHHHHHhCCCHHHHHHHHHHHHhC----CCCC-ccc
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVG-FDPSV----LHFTTLMDGLSRAGNLDACKYFFDEMANK----GCMP-DVV  186 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~  186 (300)
                      .+..+...|...|++++|.+.+..+...- ..++.    .+.+.+-..+...|+.+.+..++......    +..+ -..
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            36678889999999999999999876531 11121    22333444455678999999999877532    2222 245


Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHC--CC--CC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC--CCC-C-C--H
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITK--GQ--LP-NVFTYNSMIRGFCMAGKFDEACTMMKEMESR--GCN-P-N--F  255 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-~-~--~  255 (300)
                      ++..+...+...|++++|..+++++...  +.  .| ...++..++..|...|++++|..++++....  .+. | .  .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            6788899999999999999999987653  11  11 2467889999999999999999999887642  122 2 1  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          256 LVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       256 ~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ..+..+...+...|++++|...|.+..+
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            4566666777889999999998888765

>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=98.74  E-value=8.5e-07  Score=58.18  Aligned_cols=96  Identities=8%  Similarity=-0.134  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .+..+...+...|++++|...+++..+..+ .+...+..+...+...|++++|...+++..... +.+...+..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            444555555555566666655555555432 144555555555555666666666665555442 234455555555566


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 043969          127 KGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (300)
                      ..|++++|.+.+++..+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTT
T ss_pred             HHhhHHHHHHHHHHHHHc
Confidence            666666666666655544

>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=98.73  E-value=3.2e-07  Score=61.72  Aligned_cols=96  Identities=8%  Similarity=0.138  Sum_probs=51.2

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG--QLPN----VFTYNS  225 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~----~~~~~~  225 (300)
                      .+..+...+.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|++.+++..+..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            44555556666666666666666655542 2234455555666666666666666666554421  1111    124455


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHH
Q 043969          226 MIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +..++...|++++|++.|++...
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555666666666555554

>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=98.72  E-value=1.2e-06  Score=57.46  Aligned_cols=97  Identities=11%  Similarity=-0.055  Sum_probs=47.7

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHH
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAK   90 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (300)
                      ..+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++..+..+. +...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            344444455555555555555555544432 223334455555555555555555555555544221 344445555555


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 043969           91 YRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~  109 (300)
                      ...|++++|...++...+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.72  E-value=4.2e-07  Score=59.12  Aligned_cols=96  Identities=9%  Similarity=-0.074  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHhHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSP--DFHTYNILLHV  124 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~  124 (300)
                      .+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++..+.. +.  +...+..+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            4444555555555555555555555544322 44455555555555555555555555555442 22  34455555555


Q ss_pred             HhcC-CChHHHHHHHHHHHHc
Q 043969          125 LGKG-DKPLAALNLLNHMKEV  144 (300)
Q Consensus       125 ~~~~-~~~~~a~~~~~~~~~~  144 (300)
                      +... |++++|.+.++.....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHhCCHHHHHHHHHHHhhc
Confidence            5555 5555555555555544

>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=98.71  E-value=5.1e-07  Score=60.47  Aligned_cols=99  Identities=9%  Similarity=-0.073  Sum_probs=86.9

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...|..+...+.+.|++++|++.|.+....+ +.+...|..+..++...|++++|+..+++..+..+. +...|..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHH
Confidence            45677888889999999999999999988764 445678999999999999999999999999987543 6788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 043969           89 AKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      ++...|++++|...+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            999999999999999998765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.70  E-value=4.7e-07  Score=58.89  Aligned_cols=97  Identities=18%  Similarity=0.101  Sum_probs=47.9

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHH
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP--NFLVYNTLVS  263 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~  263 (300)
                      ..+..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+.. +.  +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHH
Confidence            3444444455555555555555555544321 234445555555555555555555555555431 11  2444555555


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHc
Q 043969          264 NLRNA-GKLAEAHEVIRHMVEK  284 (300)
Q Consensus       264 ~~~~~-g~~~~a~~~~~~~~~~  284 (300)
                      ++... |++++|.+.+++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            55555 5555555555555443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.69  E-value=7.2e-05  Score=62.49  Aligned_cols=82  Identities=11%  Similarity=0.043  Sum_probs=36.7

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043969          197 AAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM-AGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  275 (300)
                      +.++.+.|..+|.+. .. ...+...|......-.. .++.+.|..+|+...+.- +-+...+...++...+.|+.+.|.
T Consensus       298 r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR  374 (493)
T 2uy1_A          298 KKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENAR  374 (493)
T ss_dssp             HHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            344566666666666 21 11233333322211111 224666666666665531 112233333444445555555555


Q ss_pred             HHHHHH
Q 043969          276 EVIRHM  281 (300)
Q Consensus       276 ~~~~~~  281 (300)
                      .+|+++
T Consensus       375 ~l~er~  380 (493)
T 2uy1_A          375 ALFKRL  380 (493)
T ss_dssp             HHHHHS
T ss_pred             HHHHHH
Confidence            555554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.69  E-value=1.5e-06  Score=59.64  Aligned_cols=97  Identities=11%  Similarity=-0.020  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD----ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNI  120 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (300)
                      ...+..+...+...|++++|...|++..+..  |+    ...+..+...+...|++++|...++...... +.+...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHH
Confidence            3455555555556666666666666555542  22    3445555555556666666666665555442 224455555


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHc
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +..++...|++++|...|++..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            555566666666666666655554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.67  E-value=4.3e-07  Score=62.36  Aligned_cols=99  Identities=12%  Similarity=-0.016  Sum_probs=76.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      +...+..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|+..|++..... +.+...+..+..
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            34455666677788888888888888887764 4567777888888888888888888888887764 445566777788


Q ss_pred             HHHhCCCHHHHHHHHHHHHhC
Q 043969          159 GLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ++...|++++|...|+...+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888887664

>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=98.67  E-value=5.7e-07  Score=60.46  Aligned_cols=97  Identities=10%  Similarity=0.087  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCC----HhHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSG--FSPD----FHTYNI  120 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~  120 (300)
                      .+..+...+.+.|++++|++.|++.++..+. +...|..+..+|.+.|++++|++.+++..+..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4555566666666666666666666655322 45556666666666666666666666554331  0111    124555


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHc
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +..++...|++++|++.|++....
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            556666666666666666666553

>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=98.65  E-value=1.2e-06  Score=59.47  Aligned_cols=100  Identities=14%  Similarity=0.051  Sum_probs=70.9

Q ss_pred             CcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          148 PSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMI  227 (300)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  227 (300)
                      .+...+..+...+...|++++|...|+...... +.+...|..+..++...|++++|...+++..+... .+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHH
Confidence            355667777777777788888888777776653 23456677777777777778888777777776532 2566777777


Q ss_pred             HHHhccCCHHHHHHHHHHHHHC
Q 043969          228 RGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .++...|++++|...+++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            7777777777777777777653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.64  E-value=1.1e-06  Score=61.83  Aligned_cols=98  Identities=10%  Similarity=-0.067  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           45 KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      ...|..+...+...|++++|+..|++.++.... +...|..+..++.+.|++++|+..+++..+.. +.+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            335666666666777777777777776665422 55666666667777777777777777666654 3345666666666


Q ss_pred             HhcCCChHHHHHHHHHHHHc
Q 043969          125 LGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +...|++++|...|++..+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            77777777777777766654

>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=98.63  E-value=1.4e-06  Score=59.09  Aligned_cols=94  Identities=10%  Similarity=-0.067  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLG  126 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (300)
                      .|..+...+...|++++|...|++..+..+. +...+..+..++...|++++|...++...+.. +.+...+..+..++.
T Consensus        11 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~   88 (137)
T 3q49_B           11 ELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQL   88 (137)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHH
Confidence            4444444444444444444444444443211 33444444444444444444444444444432 223334444444444


Q ss_pred             cCCChHHHHHHHHHHH
Q 043969          127 KGDKPLAALNLLNHMK  142 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~  142 (300)
                      ..|++++|...|++..
T Consensus        89 ~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           89 EMESYDEAIANLQRAY  104 (137)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            4444444444444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.63  E-value=8.9e-07  Score=62.35  Aligned_cols=100  Identities=8%  Similarity=0.020  Sum_probs=82.2

Q ss_pred             CcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 043969          148 PSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMI  227 (300)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  227 (300)
                      .+...+..+...+...|++++|...|+...+.. +.+...|..+..++...|++++|+..|++..+... .+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            345677788888899999999999999888763 33667788888889999999999999999887643 3678888889


Q ss_pred             HHHhccCCHHHHHHHHHHHHHC
Q 043969          228 RGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .+|...|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999988874

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.62  E-value=0.0001  Score=61.61  Aligned_cols=202  Identities=10%  Similarity=0.055  Sum_probs=124.2

Q ss_pred             HHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 043969           64 IEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKE  143 (300)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (300)
                      +..+|++++... +.+...|...+.-+.+.|+.+.|..++++....  |.+...+......    .+.++.   ++.+.+
T Consensus       198 v~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~----~e~~~~---~~~l~~  267 (493)
T 2uy1_A          198 MHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLV----MDEEAV---YGDLKR  267 (493)
T ss_dssp             HHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHH----TTCTHH---HHHHHH
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhh----cchhHH---HHHHHH
Confidence            445666665543 224566666666666777777887777777766  3333333221111    111111   222221


Q ss_pred             cC---------C---CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh-cCCHHHHHHHHHH
Q 043969          144 VG---------F---DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA-AGELEKAQDLFDG  210 (300)
Q Consensus       144 ~~---------~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~  210 (300)
                      .-         .   ......|...+....+.++.+.|..+|+.. ... ..+...|......-.. .++.+.|..+|+.
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~  345 (493)
T 2uy1_A          268 KYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSS  345 (493)
T ss_dssp             HTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHH
T ss_pred             HHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            10         0   011244566666666778899999999998 321 1233344332222222 3369999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          211 MITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       211 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ..+.. +-+...+...+......|+.+.|..+|+++.     .....|...+..=...|+.+.+..++++..+
T Consensus       346 al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          346 GLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88763 2245566777887788999999999999873     2567777777766778999999998888874

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.62  E-value=3.7e-06  Score=57.67  Aligned_cols=98  Identities=12%  Similarity=-0.022  Sum_probs=54.7

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC----HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPF----KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      +...+..+...+...|++++|++.|++....  .|+    ...|..+...+...|++++|...+++..+.... +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHH
Confidence            3444555555556666666666666665543  233    345555555566666666666666665554322 445555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           85 IVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .+..++...|++++|...+++....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5555666666666666666655544

>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=98.60  E-value=7.4e-07  Score=59.71  Aligned_cols=97  Identities=10%  Similarity=0.094  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----HhHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF--SPD----FHTYNI  120 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~  120 (300)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++.......  .++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            44445555555555555555555555443 12444555555555555555555555555543320  011    344445


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHc
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +..++...|++++|.+.+++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            555555555555555555555543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.60  E-value=1.1e-06  Score=58.49  Aligned_cols=96  Identities=14%  Similarity=0.008  Sum_probs=59.6

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLR  266 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  266 (300)
                      .+..+...+.+.|++++|...|++..+... .+...|..+..++...|++++|+..+++..+.. +-+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            344455566666777777777766666432 256666666666677777777777776666642 224455666666666


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 043969          267 NAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       267 ~~g~~~~a~~~~~~~~~~  284 (300)
                      ..|++++|...+++.++.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777777777777666654

>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=98.60  E-value=3.4e-07  Score=61.43  Aligned_cols=113  Identities=8%  Similarity=-0.025  Sum_probs=91.7

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCC--CC----Hhh
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYA--PD----ILT   82 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~   82 (300)
                      ....+..+...+...|++++|...+.+..... +.+...+..+...+...|++++|...+++..+....  ++    ..+
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            35677888899999999999999999988764 445668889999999999999999999999876421  12    677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      +..+..++...|++++|.+.++...+..  |+......+...
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~  121 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHH
Confidence            8888899999999999999999998863  566655555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.59  E-value=6.2e-07  Score=62.54  Aligned_cols=132  Identities=14%  Similarity=0.115  Sum_probs=74.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCC-Cc----cccHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHH
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCM-PD----VVCYTVMITSYIAAGELEKAQDLFDGMITK----GQLP-NVF  221 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~  221 (300)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.    +..+ ...
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            3444455555555555555555554332100 00    124555566666666666666666665432    1000 134


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMESR----GCNP-NFLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      .+..+...+...|++++|...+++..+.    +..+ ....+..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5666677777777777777777766542    1111 134566667777788888888888877664

>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=98.53  E-value=0.00017  Score=56.53  Aligned_cols=219  Identities=11%  Similarity=-0.003  Sum_probs=155.2

Q ss_pred             ccccH-HHHHHHHHHhhhcCCCcC-HHHHHHHHHHHHccCc----------HHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           22 EVGLA-RKVVERFIKSKLFNFRPF-KNSYNAILHALLGIRQ----------YKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        22 ~~~~~-~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      +.|.+ ++|++.++.+...+  |+ ..+|+.--..+...+.          +++++.+++.+....++ +..+|+.-...
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            34544 58999999988764  44 3356554444433333          67899999999987655 78888887777


Q ss_pred             HHhcC--CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCC-hHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC---
Q 043969           90 KYRLG--KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDK-PLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA---  163 (300)
Q Consensus        90 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  163 (300)
                      +...+  ++++++.+++.+.+.. +-+..+|+.-...+...|. ++++++.++.+.+.. +-+...|+.....+.+.   
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhc
Confidence            77777  4899999999998876 5678888888777778888 589999999999875 44677777665555444   


Q ss_pred             -----------CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc-----------CCHHHHHHHHHHHHHCCCCCCHH
Q 043969          164 -----------GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA-----------GELEKAQDLFDGMITKGQLPNVF  221 (300)
Q Consensus       164 -----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------~~~~~a~~~~~~~~~~~~~p~~~  221 (300)
                                 +.++++.+.+....... +-|...|+-+-..+.+.           +.++++++.++++.+..  |+. 
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd~-  271 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PEN-  271 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TTC-
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--ccc-
Confidence                       44778888888887663 33666776555555544           45789999999998863  443 


Q ss_pred             HHHHH-----HHHHhccCCHHHHHHHHHHHHHC
Q 043969          222 TYNSM-----IRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       222 ~~~~l-----~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .|..+     .......+..+++...+.++++.
T Consensus       272 ~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          272 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            33322     22223467788888899888874

>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=98.50  E-value=1.8e-07  Score=77.85  Aligned_cols=125  Identities=11%  Similarity=-0.046  Sum_probs=98.1

Q ss_pred             HHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH
Q 043969           12 TFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKY   91 (300)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (300)
                      .+..+...+.+.|++++|++.+++..... +.+...|..+..++.+.|++++|++.+++..+.... +...+..+..++.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34445566778899999999999988764 344668999999999999999999999999988543 6788999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH--HhcCCChHHHHHHHH
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV--LGKGDKPLAALNLLN  139 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  139 (300)
                      ..|++++|.+.+++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999988764 3345556666555  778899999999988

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.49  E-value=1.4e-06  Score=57.94  Aligned_cols=90  Identities=10%  Similarity=-0.043  Sum_probs=41.4

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCC
Q 043969           51 ILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDK  130 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (300)
                      +...+.+.|++++|...|++..+..+. +...|..+..++...|++++|+..+++..+.. +.+...+..+..++...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            334444445555555555544443221 34444444444445555555555554444432 2233444444444444445


Q ss_pred             hHHHHHHHHHHH
Q 043969          131 PLAALNLLNHMK  142 (300)
Q Consensus       131 ~~~a~~~~~~~~  142 (300)
                      +++|...+++..
T Consensus       101 ~~~A~~~~~~al  112 (121)
T 1hxi_A          101 ANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555554444444

>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=98.48  E-value=2.9e-06  Score=70.35  Aligned_cols=122  Identities=11%  Similarity=0.025  Sum_probs=68.0

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCc--------------cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKGCMPD--------------VVCYTVMITSYIAAGELEKAQDLFDGMITKGQL  217 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  217 (300)
                      .+..+...+.+.|++++|...|+...+......              ...|..+..++.+.|++++|+..+++..+... 
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-
Confidence            444455555555555555555555544311100              34566666666666666666666666666532 


Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 043969          218 PNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAH  275 (300)
Q Consensus       218 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  275 (300)
                      .+...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.|+.+++.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            255666666666666667777766666666541 123345555555666666655544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.47  E-value=1.3e-06  Score=60.77  Aligned_cols=131  Identities=11%  Similarity=0.041  Sum_probs=68.4

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCC---CC--cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC----CCCC-cccc
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEVGF---DP--SVLHFTTLMDGLSRAGNLDACKYFFDEMANK----GCMP-DVVC  187 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  187 (300)
                      +..+...+...|++++|...+++..+...   .+  ....+..+...+...|++++|...++...+.    +..+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            33444444445555555555544433200   00  0124445555556666666666666554332    1000 1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITK----GQL-PNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +..+...+...|++++|...+++..+.    +.. .....+..+...+...|++++|.+.+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            555666666677777777776665432    111 1134566677777777888888777776654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.46  E-value=1.4e-05  Score=53.35  Aligned_cols=92  Identities=8%  Similarity=-0.067  Sum_probs=45.9

Q ss_pred             HHHHHHccCcHHHHHHHHHHhhhCCCCCCH---hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HhHHHHHHHH
Q 043969           51 ILHALLGIRQYKLIEWVYQQMSDEGYAPDI---LTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD---FHTYNILLHV  124 (300)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~  124 (300)
                      +...+...|++++|...|+.+.+..+. +.   ..+..+..++...|++++|...++.+.+.. +.+   ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHH
Confidence            344445555555555555555544221 12   344444555555555555555555554432 112   3344455555


Q ss_pred             HhcCCChHHHHHHHHHHHHc
Q 043969          125 LGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +...|++++|...|+.+.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            55555555555555555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.45  E-value=1.1e-05  Score=53.98  Aligned_cols=91  Identities=14%  Similarity=0.131  Sum_probs=50.9

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhCCCCCcc----ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHH
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANKGCMPDV----VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPN---VFTYNSMIR  228 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~  228 (300)
                      +...+...|++++|...|+...+..  |+.    ..+..+..++...|++++|...|++..+.... +   ...+..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHH
Confidence            3445555666666666666655532  222    24555555666666666666666666554221 2   445555666


Q ss_pred             HHhccCCHHHHHHHHHHHHHC
Q 043969          229 GFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ++...|++++|...++++.+.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            666666666666666666654

>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=98.41  E-value=4.2e-06  Score=69.33  Aligned_cols=152  Identities=8%  Similarity=-0.096  Sum_probs=114.6

Q ss_pred             ccccHHHHHHHHHHhhhcCCCc-CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC--------------HhhHHHH
Q 043969           22 EVGLARKVVERFIKSKLFNFRP-FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD--------------ILTYNIV   86 (300)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l   86 (300)
                      ..+++++|++.+......  .| ....|..+...+.+.|++++|...|++.++......              ...|..+
T Consensus       246 ~l~~~~~A~~~~~~~~~~--~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nl  323 (457)
T 1kt0_A          246 TLKSFEKAKESWEMDTKE--KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNL  323 (457)
T ss_dssp             EEEEEECCCCGGGSCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCcchhhcCHHH--HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHH
Confidence            445566666666544333  23 344788889999999999999999999887533311              5788889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCH
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNL  166 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (300)
                      ..++.+.|++++|+..+++..... +.+...|..+..+|...|++++|...|++..+.. +.+...+..+..++.+.++.
T Consensus       324 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~  401 (457)
T 1kt0_A          324 AMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEH  401 (457)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998875 4567888999999999999999999999998863 34557788888888888888


Q ss_pred             HHHHH-HHHHHH
Q 043969          167 DACKY-FFDEMA  177 (300)
Q Consensus       167 ~~a~~-~~~~~~  177 (300)
                      +++.+ .+..|.
T Consensus       402 ~~a~~~~~~~~f  413 (457)
T 1kt0_A          402 NERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHH
Confidence            87764 445554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.40  E-value=8.7e-07  Score=58.52  Aligned_cols=86  Identities=16%  Similarity=0.130  Sum_probs=49.9

Q ss_pred             cccHHHHHHHHHHhhhcC--CCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043969           23 VGLARKVVERFIKSKLFN--FRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      .|++++|+..|++....+  -+.+...+..+..++...|++++|+..|++..+..+. +...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            456666666666665542  1222335666666666667777777777666665433 4556666666666667777776


Q ss_pred             HHHHHHHhC
Q 043969          101 RLLDEMGRS  109 (300)
Q Consensus       101 ~~~~~~~~~  109 (300)
                      ..+++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666666544

>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=98.39  E-value=1.4e-06  Score=72.64  Aligned_cols=124  Identities=10%  Similarity=-0.082  Sum_probs=98.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhc
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGK  127 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (300)
                      +..+...+.+.|++++|.+.|++..+.... +..+|..+..++.+.|++++|++.+++..+.. +.+...+..+..+|..
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            344455667889999999999999987533 68899999999999999999999999998875 4567889999999999


Q ss_pred             CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH--HHhCCCHHHHHHHHH
Q 043969          128 GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG--LSRAGNLDACKYFFD  174 (300)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  174 (300)
                      .|++++|.+.+++..+.. +.+...+..+..+  +.+.|++++|...++
T Consensus        87 ~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999998863 2344455555555  788899999999988

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.37  E-value=1.3e-06  Score=57.70  Aligned_cols=61  Identities=11%  Similarity=0.213  Sum_probs=27.6

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .+..+..++...|++++|+..|++..+.... +...+..+..++...|++++|...+++...
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   89 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGVELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444444444443221 344444444444444555555444444443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.36  E-value=5.8e-06  Score=66.44  Aligned_cols=121  Identities=7%  Similarity=-0.052  Sum_probs=78.4

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhhh----------------CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 043969           48 YNAILHALLGIRQYKLIEWVYQQMSD----------------EGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF  111 (300)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~----------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  111 (300)
                      +..+...+.+.|++++|+..|++.++                .. +.+..+|..+..++.+.|++++|+..+++..+.. 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ-PVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH-HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            34455555666666666666665554                21 1245667777777777788888888877777654 


Q ss_pred             CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHH
Q 043969          112 SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKY  171 (300)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (300)
                      +.+...+..+..+|...|++++|+..|++..+.. +.+...+..+...+...++.+++.+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456677777777777888888888887777653 3355566666666666666665543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.35  E-value=7.5e-06  Score=65.78  Aligned_cols=121  Identities=6%  Similarity=-0.074  Sum_probs=90.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh----------------CCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC
Q 043969           83 YNIVMCAKYRLGKLDQFHRLLDEMGR----------------SGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGF  146 (300)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~----------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  146 (300)
                      +..+...+.+.|++++|+..+++..+                .. +.+..+|..+..+|.+.|++++|+..+++..+.. 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ-PVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH-HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            45566778888888888888888765                21 2345678888888888999999999998888763 


Q ss_pred             CCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHH
Q 043969          147 DPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      +.+...+..+..+|...|++++|...|+...+.. +.+...+..+..++...++.+++.+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778888888889999999999998887763 2245566677777777777777654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.33  E-value=1.5e-05  Score=55.85  Aligned_cols=97  Identities=12%  Similarity=-0.014  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhC--------CC---------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDE--------GY---------APDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .+......+.+.|++++|+..|++.++.        ..         +.+...|..+..++.+.|++++|+..++.....
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            4555666666667777777666666553        00         112345666666777777777777777777665


Q ss_pred             CCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969          110 GFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      . +.+...|..+..++...|++++|...|++..+.
T Consensus        93 ~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           93 E-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            4 445666677777777777777777777777665

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.31  E-value=2.8e-05  Score=52.91  Aligned_cols=112  Identities=9%  Similarity=-0.064  Sum_probs=65.9

Q ss_pred             cccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHH
Q 043969           23 VGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR----LGKLDQ   98 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~   98 (300)
                      .+++++|+++|++..+.+ .|+..    +...+...+..++|.+.|++..+.|   +...+..+...|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            345666777776666554 33322    5555555556666666666666654   45555556666655    566666


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHhc----CCChHHHHHHHHHHHHcC
Q 043969           99 FHRLLDEMGRSGFSPDFHTYNILLHVLGK----GDKPLAALNLLNHMKEVG  145 (300)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  145 (300)
                      |.+.|++..+.|   ++..+..|...|..    .+++++|...|++..+.|
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            666666666554   44555555555555    566666666666666554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.31  E-value=1.3e-05  Score=56.13  Aligned_cols=103  Identities=12%  Similarity=-0.033  Sum_probs=85.1

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhc--------C---------CCcCHHHHHHHHHHHHccCcHHHHHHHHHHhh
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLF--------N---------FRPFKNSYNAILHALLGIRQYKLIEWVYQQMS   72 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (300)
                      ...+......+.+.|++++|+..|.+....        .         .+.+...|..+..++.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            455677788889999999999999987664        0         01223478889999999999999999999999


Q ss_pred             hCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 043969           73 DEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDF  115 (300)
Q Consensus        73 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  115 (300)
                      +..+. +...|..+..++...|++++|...|+......  |+.
T Consensus        91 ~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--p~~  130 (162)
T 3rkv_A           91 KREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRNH--PAA  130 (162)
T ss_dssp             HHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--GGG
T ss_pred             hcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC--CCC
Confidence            87533 78889999999999999999999999998773  543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.30  E-value=4.1e-06  Score=66.51  Aligned_cols=129  Identities=6%  Similarity=-0.132  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH------------------hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI------------------LTYNIVMCAKYRLGKLDQFHRLLDEMGR  108 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (300)
                      .+..+...+.+.|++++|...|++..+..  |+.                  ..|..+..++.+.|++++|+..+++...
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~  258 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLT  258 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45555556666666666666666655442  221                  2677788888889999999999988877


Q ss_pred             CCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH-HHhCCCHHHHHHHHHHHHhC
Q 043969          109 SGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG-LSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       109 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~  179 (300)
                      .. +.+...|..+..+|...|++++|...|++..+.. +.+...+..+... ....+..+.+...|..+...
T Consensus       259 ~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          259 EE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            64 4467788888889999999999999998887652 2234445545444 33456677788888877654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.29  E-value=5.1e-05  Score=51.59  Aligned_cols=110  Identities=5%  Similarity=-0.112  Sum_probs=53.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHH
Q 043969          165 NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM----AGKFDEAC  240 (300)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~  240 (300)
                      ++++|...|+...+.| .|+  ..  +...|...+.+++|.+.|++..+.|   +...+..+...|..    .+++++|.
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-EMF--GC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTT--HH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHh--hh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            3444555554444443 111  11  3333334444455555555555443   34444455555544    45555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 043969          241 TMMKEMESRGCNPNFLVYNTLVSNLRN----AGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  285 (300)
                      +.|++..+.|   +...+..|...|..    .++.++|.++|++..+.|
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            5555555543   33444445555554    555556666665555555

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.27  E-value=5.8e-06  Score=68.68  Aligned_cols=126  Identities=10%  Similarity=-0.037  Sum_probs=96.1

Q ss_pred             HHHhCCCHHHHHHHHHHHHhC---CC---CC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCC-C-CHHHHH
Q 043969          159 GLSRAGNLDACKYFFDEMANK---GC---MP-DVVCYTVMITSYIAAGELEKAQDLFDGMITK-----GQL-P-NVFTYN  224 (300)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~---~~---~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~-p-~~~~~~  224 (300)
                      .+...|++++|+.++++..+.   -+   .| ...+++.|..+|...|++++|..++++..+.     |.. | ...+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            356789999999999887543   11   12 2457899999999999999999999987642     221 2 246789


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHH-----CCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          225 SMIRGFCMAGKFDEACTMMKEMES-----RGC-NPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .|...|...|++++|..++++..+     .|- .|+ ..+...+-.++...+.+++|+.++.++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998764     232 233 344566667788899999999999999873

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.27  E-value=5.9e-06  Score=68.65  Aligned_cols=125  Identities=10%  Similarity=-0.031  Sum_probs=96.2

Q ss_pred             HHhcCCChHHHHHHHHHHHHc-----C--CCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC-----C-CCCc-cccHH
Q 043969          124 VLGKGDKPLAALNLLNHMKEV-----G--FDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK-----G-CMPD-VVCYT  189 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~~~  189 (300)
                      .+...|++++|+.++++..+.     |  .+....+++.|..+|...|++++|..++++..+.     | -.|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            356789999999999887653     1  1123467899999999999999999999887542     2 1222 45789


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-----CCC-CC-HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          190 VMITSYIAAGELEKAQDLFDGMITK-----GQL-PN-VFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       190 ~li~~~~~~~~~~~a~~~~~~~~~~-----~~~-p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .|...|...|++++|..++++..+.     |.. |+ ..+.+.+-.++...+.+++|..++.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987642     332 22 34556777888889999999999999876

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.25  E-value=4.4e-06  Score=66.34  Aligned_cols=149  Identities=11%  Similarity=0.047  Sum_probs=76.1

Q ss_pred             HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHH
Q 043969          115 FHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  194 (300)
                      ...+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+          ....|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHH
Confidence            345566666777778888888877777664  233221       12222233322211          11367778888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH-HHhcCCHH
Q 043969          195 YIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN-FLVYNTLVSN-LRNAGKLA  272 (300)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~-~~~~g~~~  272 (300)
                      +.+.|++++|+..+++..+... .+...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888877632 36778888888888888888888888887764  333 3344444433 23456677


Q ss_pred             HHHHHHHHHHHcC
Q 043969          273 EAHEVIRHMVEKG  285 (300)
Q Consensus       273 ~a~~~~~~~~~~~  285 (300)
                      .+.+.|+++.+..
T Consensus       317 ~a~~~~~~~l~~~  329 (338)
T 2if4_A          317 KQKEMYKGIFKGK  329 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHHHhhCCC
Confidence            7777887776554

>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=98.23  E-value=3.7e-05  Score=53.06  Aligned_cols=63  Identities=19%  Similarity=0.155  Sum_probs=40.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHC-----CCCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          222 TYNSMIRGFCMAGKFDEACTMMKEMESR-----GCNPN-FLVY----NTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~----~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      .|..+..++.+.|++++|+..+++.++.     .+.|+ ...|    .....++...|++++|+..|++.++.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            6666666666667777666666666653     11343 3455    66666777777777777777777654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.18  E-value=0.00041  Score=58.99  Aligned_cols=171  Identities=10%  Similarity=-0.027  Sum_probs=128.3

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC-
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK----------LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD-  129 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  129 (300)
                      .++|++.++++....+. +..+|+.--.++...++          ++++++.++.+.+.. +-+..+|..-..++.+.+ 
T Consensus        45 ~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            46778888888887544 56677766666666666          888999998888775 456778888888888888 


Q ss_pred             -ChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCC-CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhc---------
Q 043969          130 -KPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAG-NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAA---------  198 (300)
Q Consensus       130 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---------  198 (300)
                       +++++++.++++.+.. +-+...|+.-..++.+.| .++++.+.++.+.+... -+...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhccccccccc
Confidence             6699999999998874 446777777777777778 78888888888877643 3667777777666653         


Q ss_pred             -----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCH
Q 043969          199 -----GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKF  236 (300)
Q Consensus       199 -----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  236 (300)
                           +.++++++.+.+....... |...|.-+-..+.+.++.
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCc
Confidence                 5578999999888876433 677888777777776663

>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=98.18  E-value=4.1e-05  Score=52.83  Aligned_cols=96  Identities=10%  Similarity=-0.063  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCC------C-----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAP------D-----ILTYNIVMCAKYRLGKLDQFHRLLDEMGRS------  109 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  109 (300)
                      .+......+.+.|++++|+..|++.++..+..      +     ...|..+..++.+.|++++|+..+++....      
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            34455555666677777777776666543220      1     125555555666666666666666555443      


Q ss_pred             -CCCCCHhHH----HHHHHHHhcCCChHHHHHHHHHHHH
Q 043969          110 -GFSPDFHTY----NILLHVLGKGDKPLAALNLLNHMKE  143 (300)
Q Consensus       110 -~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  143 (300)
                       . +-+...|    .....++...|++++|+..|++..+
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             2 1123344    4445555555555555555555443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.12  E-value=0.0005  Score=58.49  Aligned_cols=172  Identities=12%  Similarity=-0.020  Sum_probs=129.1

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCC----------hHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           94 GKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDK----------PLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ...++|++.++.+.... +-+..+|+.--.++...|+          ++++++.++.+.+.. +-+..+|+.-..++.+.
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            34567899999988775 3455667766666666666          889999999998874 45777888777778888


Q ss_pred             C--CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-------
Q 043969          164 G--NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAG-ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA-------  233 (300)
Q Consensus       164 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-------  233 (300)
                      +  +++++...++.+.+.. +-+...|+.-..++.+.| .++++++.+.++.+..+. |...|+.....+.+.       
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 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccc
Confidence            8  7799999999998874 336778888888888888 899999999999887554 788888777776553       


Q ss_pred             -------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 043969          234 -------GKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGK  270 (300)
Q Consensus       234 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  270 (300)
                             +.++++.+.+++..... +-+...|..+-..+.+.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                   56788999998888752 3355667766666666555

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.08  E-value=4.5e-06  Score=54.14  Aligned_cols=63  Identities=16%  Similarity=0.131  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           46 NSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      ..+..+...+...|++++|...|++..+..+. +...+..+..++...|++++|+..+++..+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34455555555556666666665555554322 4455555555555566666666665555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.06  E-value=3e-06  Score=55.05  Aligned_cols=64  Identities=17%  Similarity=0.162  Sum_probs=37.9

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          185 VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       185 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...+..+...+...|++++|...|++..+... .+...+..+..++...|++++|...+++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34455555566666666666666666655422 24555666666666666666666666666653

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.02  E-value=3.1e-05  Score=53.30  Aligned_cols=99  Identities=11%  Similarity=-0.003  Sum_probs=69.5

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcH----------HHHHHHHHHhhhCCCCCCHhhHHHHHHHH
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQY----------KLIEWVYQQMSDEGYAPDILTYNIVMCAK   90 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (300)
                      .+.+.+++|++.++.....+ +.+...|..+..++...+++          ++|+..|++.++..+. +..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            34567888888888877764 44566788788888877765          4888888888877544 667777788888


Q ss_pred             HhcC-----------CHHHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 043969           91 YRLG-----------KLDQFHRLLDEMGRSGFSPDFHTYNILLH  123 (300)
Q Consensus        91 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (300)
                      ...|           ++++|++.|++..+.  .|+...|...+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            7664           677777777777765  466555544444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.00  E-value=0.00019  Score=46.79  Aligned_cols=79  Identities=9%  Similarity=0.060  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      .+...|+...+.. +.+...+..+...+...|++++|...|++..+... .+...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666665542 23455666777777777777777777777776532 256667777777777777777777777766


Q ss_pred             H
Q 043969          248 S  248 (300)
Q Consensus       248 ~  248 (300)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.97  E-value=0.0001  Score=45.53  Aligned_cols=62  Identities=13%  Similarity=0.079  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++....
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            4444444455555555555555555443211 3444444444555555555555555554443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.93  E-value=8.7e-05  Score=48.44  Aligned_cols=62  Identities=10%  Similarity=-0.123  Sum_probs=26.3

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMK  142 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (300)
                      ...+..+...+...|++++|...+++..... +.+...|..+..++...|++++|...|++..
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444444444444444443332 2223334444444444444444444444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.92  E-value=0.00013  Score=45.10  Aligned_cols=83  Identities=13%  Similarity=0.034  Sum_probs=66.6

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      +...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++..+..+. +...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHH
Confidence            45678888889999999999999999988764 345668889999999999999999999999887533 5666666666


Q ss_pred             HHHhc
Q 043969           89 AKYRL   93 (300)
Q Consensus        89 ~~~~~   93 (300)
                      ++...
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            65443

>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=97.81  E-value=6.5e-05  Score=51.72  Aligned_cols=100  Identities=8%  Similarity=-0.056  Sum_probs=71.7

Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH----------HHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           56 LGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL----------DQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      .+.+++++|.+.++...+..+. +...|..+..++...+++          ++|+..|++..+.. +.+..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            3456788899999988887644 788888888888777654          58888888887764 44567788888888


Q ss_pred             hcCC-----------ChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969          126 GKGD-----------KPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus       126 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ...|           ++++|++.|++..+.  .|+...|...+..
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            7654           778888888887775  4555555444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.81  E-value=0.00031  Score=44.53  Aligned_cols=64  Identities=14%  Similarity=0.125  Sum_probs=43.5

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          184 DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       184 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      +...+..+..++...|++++|+..|++..+.... +...|..+..+|...|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4455666777777777777777777777665332 455677777777777777777777776654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.66  E-value=0.0004  Score=44.01  Aligned_cols=59  Identities=12%  Similarity=0.016  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEM  106 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (300)
                      .+..+...+...|++++|+..|++..+..+. +...|..+..++...|++++|.+.+++.
T Consensus         9 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            9 TRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4444444444555555555555544444322 3334444444445555555555444444

>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=97.57  E-value=0.00037  Score=57.05  Aligned_cols=94  Identities=12%  Similarity=0.063  Sum_probs=73.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCC---CCC----CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-----C-CCCC-HH
Q 043969          191 MITSYIAAGELEKAQDLFDGMITKG---QLP----NVFTYNSMIRGFCMAGKFDEACTMMKEMESR-----G-CNPN-FL  256 (300)
Q Consensus       191 li~~~~~~~~~~~a~~~~~~~~~~~---~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~  256 (300)
                      .+..+.+.|++++|+.++++..+..   ..|    ...+++.+..+|...|++++|+.++++..+.     | ..|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3455667899999999999887641   112    2467899999999999999999999988742     2 2233 35


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          257 VYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       257 ~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      +++.|...|...|++++|+.++++..+-
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            6888899999999999999999988763

>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=97.56  E-value=0.00025  Score=58.02  Aligned_cols=88  Identities=6%  Similarity=-0.045  Sum_probs=69.2

Q ss_pred             hcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHC-----C-CCCC-HHHHHHHH
Q 043969          197 AAGELEKAQDLFDGMITK---GQLPN----VFTYNSMIRGFCMAGKFDEACTMMKEMESR-----G-CNPN-FLVYNTLV  262 (300)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~li  262 (300)
                      ..|++++|+.++++..+.   -.-|+    ..+++.+..+|...|++++|..++++..+.     | -.|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357899999999987653   11122    467899999999999999999999988742     3 2333 35688999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 043969          263 SNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       263 ~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..|...|++++|+.++++..+-
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHH
Confidence            9999999999999999998763

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.50  E-value=0.0073  Score=47.76  Aligned_cols=143  Identities=9%  Similarity=-0.075  Sum_probs=84.6

Q ss_pred             CcCHHHHHHHHHHHHc--c---CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh---cC--CHHHH---HHHHHHHHh
Q 043969           42 RPFKNSYNAILHALLG--I---RQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR---LG--KLDQF---HRLLDEMGR  108 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~--~~~~a---~~~~~~~~~  108 (300)
                      +.+...|...+++...  .   ....+|..+|++.++..+. ....|..+..++..   .+  .....   ...++....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            4445566666655432  2   3357788888888876322 33444433333321   11  11111   111221111


Q ss_pred             -CCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcccc
Q 043969          109 -SGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVC  187 (300)
Q Consensus       109 -~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  187 (300)
                       ...+.+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++....  .|...+
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--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANT  345 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcCh
Confidence             1125567777777666666788888888888888874  67767777777888888888888888887775  455555


Q ss_pred             HH
Q 043969          188 YT  189 (300)
Q Consensus       188 ~~  189 (300)
                      |.
T Consensus       346 ~~  347 (372)
T 3ly7_A          346 LY  347 (372)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.43  E-value=0.00057  Score=55.88  Aligned_cols=85  Identities=8%  Similarity=-0.096  Sum_probs=49.1

Q ss_pred             CCHHHHHHHHHHHHhC---CCCC----ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CCC-HHHHHHHHHH
Q 043969          164 GNLDACKYFFDEMANK---GCMP----DVVCYTVMITSYIAAGELEKAQDLFDGMITK-----GQ-LPN-VFTYNSMIRG  229 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~---~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~-~p~-~~~~~~l~~~  229 (300)
                      |++++|..++++..+.   -+.|    ...+++.+..+|...|++++|+.++++..+.     |. .|+ ..+++.|...
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            4566666666554331   1111    1345666677777777777777776665432     21 122 3456777777


Q ss_pred             HhccCCHHHHHHHHHHHHH
Q 043969          230 FCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~  248 (300)
                      |...|++++|..++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            7777777777777766654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.40  E-value=0.026  Score=44.71  Aligned_cols=144  Identities=13%  Similarity=0.018  Sum_probs=97.3

Q ss_pred             CCCCHhhHHHHHHHHH--hcC---CHHHHHHHHHHHHhCCCCCC-HhHHHHHHHHHh----cCCCh-HHHHH---HHHHH
Q 043969           76 YAPDILTYNIVMCAKY--RLG---KLDQFHRLLDEMGRSGFSPD-FHTYNILLHVLG----KGDKP-LAALN---LLNHM  141 (300)
Q Consensus        76 ~~~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~----~~~~~-~~a~~---~~~~~  141 (300)
                      .+.+...|...+.+..  ..+   +..+|..+|++..+..  |+ ...+..+..+|.    ..+.. .....   .+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            3557888888886643  333   3578999999998873  54 344554443332    11111 11111   12211


Q ss_pred             HH-cCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 043969          142 KE-VGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNV  220 (300)
Q Consensus       142 ~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~  220 (300)
                      .. ...+.+...+..+.-.+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|.+....  .|..
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~  343 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGA  343 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCc
Confidence            11 1225677788888777777899999999999999885  67777777888889999999999999998885  5677


Q ss_pred             HHHHH
Q 043969          221 FTYNS  225 (300)
Q Consensus       221 ~~~~~  225 (300)
                      .+|..
T Consensus       344 ~t~~~  348 (372)
T 3ly7_A          344 NTLYW  348 (372)
T ss_dssp             HHHHH
T ss_pred             ChHHH
Confidence            77653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.35  E-value=0.0011  Score=41.61  Aligned_cols=57  Identities=16%  Similarity=0.227  Sum_probs=32.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          192 ITSYIAAGELEKAQDLFDGMITKGQLPNVF-TYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       192 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...+...|++++|...+++..+... .+.. .+..+..++...|++++|.+.|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3445556666666666666655422 1344 5566666666666666666666666654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.35  E-value=0.014  Score=51.94  Aligned_cols=149  Identities=16%  Similarity=0.137  Sum_probs=80.6

Q ss_pred             ccccHHHHHH-HHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 043969           22 EVGLARKVVE-RFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        22 ~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                      ..+++++|.+ ++..+      |+......++..+.+.|..+.|.++.+.         ..   .-.......|++++|.
T Consensus       611 ~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~  672 (814)
T 3mkq_A          611 LRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLAR  672 (814)
T ss_dssp             HTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHH
T ss_pred             HhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHH
Confidence            4566666655 33221      1011335666667777777777655421         11   1123345677777777


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      ++.+.+      .+...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++-+.....|
T Consensus       673 ~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          673 DLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             HHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            765432      3567777888888888888888777776643         2344444555666665555444444332


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFD  209 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~  209 (300)
                            -++....+|.+.|++++|.+++.
T Consensus       738 ------~~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          738 ------KFNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             ------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             ------chHHHHHHHHHcCCHHHHHHHHH
Confidence                  12333334444555555554444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.31  E-value=0.0068  Score=53.91  Aligned_cols=131  Identities=12%  Similarity=0.082  Sum_probs=73.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC
Q 043969           84 NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA  163 (300)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (300)
                      ..++..+.+.|..+.|.++.+.         ..   .-.......|+++.|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            5555666666666666654421         10   1122334456777776664332      2456677777777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMM  243 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (300)
                      ++++.|++.|..+..         |..+...+...|+.+...++-+.....|.      ++....+|.+.|++++|.+++
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHH
Confidence            777777777776542         34455555556666665555555444431      233444555566777776666


Q ss_pred             HHHH
Q 043969          244 KEME  247 (300)
Q Consensus       244 ~~~~  247 (300)
                      .++.
T Consensus       760 ~~~~  763 (814)
T 3mkq_A          760 IKSQ  763 (814)
T ss_dssp             HHTT
T ss_pred             HHcC
Confidence            5443

>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=97.30  E-value=0.00099  Score=54.51  Aligned_cols=87  Identities=10%  Similarity=-0.004  Sum_probs=59.6

Q ss_pred             hCCCHHHHHHHHHHHHhCC---CCC----ccccHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CCC-HHHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKG---CMP----DVVCYTVMITSYIAAGELEKAQDLFDGMITK-----GQ-LPN-VFTYNSMI  227 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~-~p~-~~~~~~l~  227 (300)
                      +.|++++|+..++...+..   +.|    ...+++.+..+|...|++++|+.++++..+.     |. .|+ ..+++.|.
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            5677788888887775431   112    2456777888888888888888888876542     21 122 35677888


Q ss_pred             HHHhccCCHHHHHHHHHHHHH
Q 043969          228 RGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ..|...|++++|..++++..+
T Consensus       379 ~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          379 KLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHH
Confidence            888888888888888877664

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.17  E-value=0.0049  Score=38.51  Aligned_cols=59  Identities=15%  Similarity=0.187  Sum_probs=50.5

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESRGCNPNFL-VYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ....+...|++++|...+++..+.. +.+.. .+..+..++...|++++|.+.|++.++.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4567788999999999999999863 33556 88888899999999999999999999876

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.13  E-value=0.0098  Score=40.50  Aligned_cols=82  Identities=11%  Similarity=0.081  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhccCCHHHHH
Q 043969          166 LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAG---ELEKAQDLFDGMITKGQLP--NVFTYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~  240 (300)
                      ...+++.|.+....+. ++..+...+..++++.+   +.++++.++++..+.. .|  +...+-.+.-+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3444555554444332 45555555555555555   4446666666665543 12  2334444555556666666666


Q ss_pred             HHHHHHHHC
Q 043969          241 TMMKEMESR  249 (300)
Q Consensus       241 ~~~~~~~~~  249 (300)
                      +.++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            666666653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.11  E-value=0.055  Score=41.19  Aligned_cols=84  Identities=15%  Similarity=0.084  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHhCCCCCC---HhHHHHHHHHHhc-----CCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhC-CCHH
Q 043969           97 DQFHRLLDEMGRSGFSPD---FHTYNILLHVLGK-----GDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRA-GNLD  167 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~  167 (300)
                      ..|...+++..+.  .|+   ...|..+...|.+     .|+.++|.+.|++..+.+..-+..++......++.. |+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            4555555555554  243   4456666666666     366666666666666653222245555555666553 6666


Q ss_pred             HHHHHHHHHHhCCCC
Q 043969          168 ACKYFFDEMANKGCM  182 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~  182 (300)
                      .+.+.+++.......
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            666666666665333

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.92  E-value=0.0052  Score=41.83  Aligned_cols=84  Identities=11%  Similarity=0.074  Sum_probs=52.8

Q ss_pred             ccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccC---cHHHHHHHHHHhhhCCCCC--CHhhHHHHHHHHHhcCCHHH
Q 043969           24 GLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIR---QYKLIEWVYQQMSDEGYAP--DILTYNIVMCAKYRLGKLDQ   98 (300)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~   98 (300)
                      +....+.+.+.+....+ .++..+.-.+..++++.+   +.++++.+++...+.. .|  +...+-.+.-++.+.+++++
T Consensus        12 ~~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            34455555565554444 355555555666677766   5567777777777654 23  34455555666777777777


Q ss_pred             HHHHHHHHHhC
Q 043969           99 FHRLLDEMGRS  109 (300)
Q Consensus        99 a~~~~~~~~~~  109 (300)
                      |.+.++.+.+.
T Consensus        90 A~~y~~~lL~i  100 (152)
T 1pc2_A           90 ALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            77777777765

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.91  E-value=0.011  Score=36.75  Aligned_cols=48  Identities=4%  Similarity=-0.082  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .++|..++++.++..+. +......+...+.+.|++++|+..|+.+.+.
T Consensus        25 ~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444444322 3444444444444445555555555444443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.84  E-value=0.018  Score=36.52  Aligned_cols=63  Identities=14%  Similarity=0.072  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCC------CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEG------YAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      .+..+...+...++++.|...|+...+.-      -.+....+..+..++.+.|+++.|...++++.+.
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34445555555555555555555544321      0123344555555555555555555555555443

>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=96.76  E-value=0.032  Score=37.68  Aligned_cols=103  Identities=15%  Similarity=0.207  Sum_probs=53.5

Q ss_pred             CHhHHHHHHHHHhcCCCh------HHHHHHHHHHHHcCCCCcHh-hHHHHHHH------HHhCCCHHHHHHHHHHHHhCC
Q 043969          114 DFHTYNILLHVLGKGDKP------LAALNLLNHMKEVGFDPSVL-HFTTLMDG------LSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      |..+|-..+....+.|++      +...++|++.... ++|+.. .+...+..      +...+++++|.++|+.+.+.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            445555555555545555      5555666666554 444421 11111111      122367777777777765542


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      -.. ...|....+--.+.|+.+.|.+++......+.+|
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            222 3444444444456777777777777776665553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.71  E-value=0.018  Score=36.50  Aligned_cols=69  Identities=6%  Similarity=-0.237  Sum_probs=56.6

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcC------CCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCC
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFN------FRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEG   75 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (300)
                      +.+..-+-.|...+.+.+++..|..+|+......      ..+...++..+..++.+.|+++.|...++++.+..
T Consensus         2 ~Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            2 FLTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            3456667788899999999999999999876531      12345589999999999999999999999998864

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.69  E-value=0.046  Score=33.84  Aligned_cols=48  Identities=4%  Similarity=-0.080  Sum_probs=22.1

Q ss_pred             hHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          131 PLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      .++|..++++..+.. +-+......+...+.+.|++++|...|+.+.+.
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555444432 223334444444445555555555555554443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.56  E-value=0.11  Score=36.39  Aligned_cols=100  Identities=12%  Similarity=0.112  Sum_probs=51.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHH
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDAC  169 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (300)
                      ..+.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+..+         +..+.-.|...|+.++.
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            34456666665555443      2445566666666666666666666555432         22333344445555554


Q ss_pred             HHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 043969          170 KYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDG  210 (300)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  210 (300)
                      .++-+.....|      -++.....+.-.|+++++.++|.+
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44444433332      244444455556666666666543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.50  E-value=0.089  Score=34.84  Aligned_cols=137  Identities=11%  Similarity=0.063  Sum_probs=70.4

Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHH
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQD  206 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  206 (300)
                      -.|..++..++..+.....   +..-+|.+|--....-+-+-..++++.+-+.   .|.          ..+|+......
T Consensus        19 ldG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHH
Confidence            3566666666666665532   3344444444444444444444444444322   121          12333333333


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          207 LFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       207 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+-.+-     .+...++..+..+...|+-++..++..++.. +.+|++...-.+..+|.+.|+..+|.+++.++.++|
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            333221     1334455556666666666666666666433 235566666666666666666666666666666666

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.45  E-value=0.098  Score=34.65  Aligned_cols=65  Identities=11%  Similarity=0.143  Sum_probs=33.9

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 043969          186 VCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGC  251 (300)
Q Consensus       186 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (300)
                      ..++..+..+...|+-++-.+++..+... .+|++...-.+..+|.+.|+..+|.+++.+..+.|+
T Consensus        92 e~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           92 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            33444455555555555555555554322 344555555555555555555555555555555554

>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=96.26  E-value=0.1  Score=35.30  Aligned_cols=115  Identities=15%  Similarity=0.132  Sum_probs=75.7

Q ss_pred             CcHhhHHHHHHHHHhCCCH------HHHHHHHHHHHhCCCCCccc-cHHHHHH------HHHhcCCHHHHHHHHHHHHHC
Q 043969          148 PSVLHFTTLMDGLSRAGNL------DACKYFFDEMANKGCMPDVV-CYTVMIT------SYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~li~------~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      .|..+|-..+...-+.|++      ++.+++|+..... ++|+.. .|..-|.      .+...++.++|.++|+.+++.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3556666666666666777      7788888887765 455431 1211111      123357888999999988765


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 043969          215 GQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNL  265 (300)
Q Consensus       215 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  265 (300)
                      +-.- ...|....+--.+.|+...|.+++...+..+..| ...+.+.++-+
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~nl  138 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALRNL  138 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHHHH
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHHhh
Confidence            3333 7777777777788999999999999988876543 34555555443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.23  E-value=0.056  Score=41.15  Aligned_cols=82  Identities=11%  Similarity=-0.024  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHhhhcCCCcC---HHHHHHHHHHHHcc-----CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc-CCH
Q 043969           26 ARKVVERFIKSKLFNFRPF---KNSYNAILHALLGI-----RQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL-GKL   96 (300)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~   96 (300)
                      ..+|...+++..+.  .|+   ...|..+...|...     |+.++|.+.|++.++.++.-+..++......+++. |+.
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            34455555555444  233   23555555555552     55555555555555543322244444455555442 555


Q ss_pred             HHHHHHHHHHHhC
Q 043969           97 DQFHRLLDEMGRS  109 (300)
Q Consensus        97 ~~a~~~~~~~~~~  109 (300)
                      +++.+.+++....
T Consensus       257 ~~a~~~L~kAL~a  269 (301)
T 3u64_A          257 AGFDEALDRALAI  269 (301)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcC
Confidence            5555555555554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.16  E-value=0.1  Score=34.15  Aligned_cols=66  Identities=11%  Similarity=0.046  Sum_probs=29.7

Q ss_pred             CCHHHHHHHHHHHhccCCHHH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          218 PNVFTYNSMIRGFCMAGKFDE---ACTMMKEMESRGCNP--NFLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       218 p~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      |+..+--.+..+++++.+...   ++.+++++...+ .|  .....-.+.-++.+.|++++|+++++.+++.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            344444445555555544433   444555444432 12  1122223333455555555555555555544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.12  E-value=0.2  Score=35.01  Aligned_cols=129  Identities=15%  Similarity=0.211  Sum_probs=90.5

Q ss_pred             HHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          123 HVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                      ......|+++.|.++.+.+      .+...|..|.......|+++-|++.|....+         +..+.-.|...|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3445679999999887766      2677899999999999999999999987653         566666777788888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHM  281 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  281 (300)
                      ...++-+.....|-      ++.....+...|+++++.+++.+.-.   .|      .........|-.+.|.++.+++
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~~r---~~------eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEGGS---LP------LAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTTC---HH------HHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHCCC---hH------HHHHHHHHcCcHHHHHHHHHHh
Confidence            87777666655542      45556667778999999988854322   11      1111223456677777776654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.46  E-value=0.3  Score=32.00  Aligned_cols=85  Identities=12%  Similarity=0.044  Sum_probs=48.4

Q ss_pred             ccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHH---HHHHHHHhhhCCCC-CCHhhHHHHHHHHHhcCCHHHH
Q 043969           24 GLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKL---IEWVYQQMSDEGYA-PDILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a   99 (300)
                      .....+.+.+.+....+ .|+..+--.+..++.+.++...   ++.+++.+.+.+.+ -.....-.+.-++.+.|++++|
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            34444455555444433 2555544455556666665544   66777776665311 1333444455667777777777


Q ss_pred             HHHHHHHHhC
Q 043969          100 HRLLDEMGRS  109 (300)
Q Consensus       100 ~~~~~~~~~~  109 (300)
                      .+.++.+.+.
T Consensus        94 ~~~~~~lL~~  103 (126)
T 1nzn_A           94 LKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.44  E-value=0.52  Score=41.33  Aligned_cols=51  Identities=14%  Similarity=0.209  Sum_probs=34.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          195 YIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      +...|+++-|+.+-++.... .+-+-.+|..|..+|...|+++.|+-.++.+
T Consensus       347 Ll~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            44567777777777776664 2224667777777777777777777766655

>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=95.06  E-value=0.32  Score=30.24  Aligned_cols=63  Identities=10%  Similarity=0.238  Sum_probs=41.2

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      +.-+..+-++.+......|++......+++|.+.+++..|.++++-.+.+ ..+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            44566666666666677777777777777777777777777777776654 2223345655554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.91  E-value=0.44  Score=41.81  Aligned_cols=126  Identities=14%  Similarity=0.043  Sum_probs=79.7

Q ss_pred             HHHHHHhhcccc-HHHHHHHHHHhhhcCCCcCHHHH--HHHHHHHHccCc-HHHHHHHHHHhhhC------CCC-CCHh-
Q 043969           14 NILICTCGEVGL-ARKVVERFIKSKLFNFRPFKNSY--NAILHALLGIRQ-YKLIEWVYQQMSDE------GYA-PDIL-   81 (300)
Q Consensus        14 ~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~-~~~~-   81 (300)
                      ..++..+...++ .+.|+++|+++...  .|...++  ..++..+...++ --+|.+++.+..+.      ..+ .+.. 
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~--~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKK--DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            445555555666 57899999998776  3443332  233333333332 22344455444321      111 1211 


Q ss_pred             ---------hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHH
Q 043969           82 ---------TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMK  142 (300)
Q Consensus        82 ---------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (300)
                               ....-...+...|+++.|+++-++..... |.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                     11122345667899999999999998773 4567899999999999999999999988773

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.73  E-value=0.21  Score=40.19  Aligned_cols=73  Identities=11%  Similarity=0.143  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 043969          188 YTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES-----RGCNPNFLVYNTL  261 (300)
Q Consensus       188 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  261 (300)
                      ...++..+...|++++|...+..+.... +.+...+..++.++.+.|+..+|.+.|+.+.+     .|+.|+..+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            3456677778888888888888877653 34777888888888888888888888887653     4888887664443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.44  E-value=0.33  Score=39.08  Aligned_cols=55  Identities=7%  Similarity=-0.060  Sum_probs=26.0

Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 043969          121 LLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEM  176 (300)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (300)
                      ++..+...|+++++...+..+... .+.+...+..++.++.+.|+..+|.+.|+..
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334444445555555444444433 2334444555555555555555555555443

>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=94.21  E-value=0.56  Score=29.14  Aligned_cols=61  Identities=10%  Similarity=0.160  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHH
Q 043969           96 LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLM  157 (300)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (300)
                      .-++.+-++.+....+.|++.+....+++|.+.+++..|.++++-++... ......|..++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~l   86 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHH
Confidence            33455555666666666666666666667766677766766666665542 22233455544

>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=93.94  E-value=0.65  Score=30.61  Aligned_cols=64  Identities=9%  Similarity=0.239  Sum_probs=44.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043969          200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSN  264 (300)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  264 (300)
                      |.-+..+-++.+....+.|++......+++|-+.+|+..|.++++-.+.+ ..+....|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHH
Confidence            34456666666666777788888888888888888888888888877754 23334456666543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.56  E-value=6.4e-05  Score=60.95  Aligned_cols=203  Identities=10%  Similarity=0.086  Sum_probs=119.8

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      +.+|..|..+..+.+...+|++.|-+..      |...|..++.+..+.|.+++-...+...++..-  ++..=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIkA~------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIKAD------DPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCCCS------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHhCC------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHH
Confidence            4556777777777777777777665532      223677888888888888888877766555422  44455677888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc--------------------CCCCc
Q 043969           90 KYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV--------------------GFDPS  149 (300)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~  149 (300)
                      |++.++..+..+++.       .|+..-...+.+-|...|.++.|.-+|..+..-                    .-..+
T Consensus       126 yAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            888877654433221       245444555555555556655555544333110                    01235


Q ss_pred             HhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043969          150 VLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRG  229 (300)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  229 (300)
                      +.||-.+-.+|...+++.-|.-.--.++-     ...-...++..|-..|.+++.+.+++.-... -+.....|+.|.-.
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaIL  272 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAIL  272 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHH
Confidence            56777777777777776665544333331     1222344555666677777777766665533 23466667666666


Q ss_pred             Hhcc
Q 043969          230 FCMA  233 (300)
Q Consensus       230 ~~~~  233 (300)
                      |++-
T Consensus       273 YsKY  276 (624)
T 3lvg_A          273 YSKF  276 (624)
T ss_dssp             HHSS
T ss_pred             HHhc
Confidence            6653

>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=92.37  E-value=1.6  Score=28.83  Aligned_cols=66  Identities=6%  Similarity=0.028  Sum_probs=32.0

Q ss_pred             CccccHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          183 PDVVCYTVMITSYIAAGE---LEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       183 ~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      |+..+--....++.+..+   ..+++.++.++.+.+..-....+--+.-++.+.|++++|.+..+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            344443344444444433   334555555555443211233344455555566666666666666555

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.24  E-value=4.1  Score=33.41  Aligned_cols=190  Identities=10%  Similarity=0.076  Sum_probs=100.8

Q ss_pred             cCcHHHHHHHHHHhhhC-----CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH----hcC
Q 043969           58 IRQYKLIEWVYQQMSDE-----GYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL----GKG  128 (300)
Q Consensus        58 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  128 (300)
                      .++++.|++.+..+.+.     ...........++..|...++++...+.+..+.+..-.. ......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788888777665542     233356667778888999999988888777665442222 22223333322    222


Q ss_pred             CChHH--HHHHHHHHHHc---CCCC---cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC--CCCCc---cccHHHHHHHH
Q 043969          129 DKPLA--ALNLLNHMKEV---GFDP---SVLHFTTLMDGLSRAGNLDACKYFFDEMANK--GCMPD---VVCYTVMITSY  195 (300)
Q Consensus       129 ~~~~~--a~~~~~~~~~~---~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~li~~~  195 (300)
                      ...+.  -..+.+.+...   .+-.   .......|...+...|++.+|..++..+...  +..+.   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            22221  11111111110   0111   1112245666777777777777777776432  21111   23455566677


Q ss_pred             HhcCCHHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          196 IAAGELEKAQDLFDGMIT----KGQLPN--VFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~----~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ...+++..|..++.++..    ....|+  ...+...+..+...+++.+|.+.|.+..+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            777777777777776532    111222  13345556666666777777666655543

>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=92.02  E-value=1.7  Score=28.64  Aligned_cols=61  Identities=13%  Similarity=0.182  Sum_probs=42.1

Q ss_pred             HHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 043969           63 LIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHV  124 (300)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (300)
                      +..+-++.+.....-|++....+.+.+|.+.+|+..|.++++.++..- .+...+|..+++-
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqE  131 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE  131 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHH
Confidence            344555666666777788888888888888888888888887775542 3445567666654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.79  E-value=8.4  Score=36.00  Aligned_cols=23  Identities=4%  Similarity=-0.104  Sum_probs=13.3

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHh
Q 043969           49 NAILHALLGIRQYKLIEWVYQQM   71 (300)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~   71 (300)
                      -.+..++...|++++|.+.|++.
T Consensus       846 yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          846 YLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Confidence            34455556666666666666544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.61  E-value=3.8  Score=38.25  Aligned_cols=121  Identities=12%  Similarity=0.072  Sum_probs=79.5

Q ss_pred             cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCC-----------------------ccccHHHHHHHHHhcCCHHHHH
Q 043969          149 SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMP-----------------------DVVCYTVMITSYIAAGELEKAQ  205 (300)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------~~~~~~~li~~~~~~~~~~~a~  205 (300)
                      +....-.+..++...|++++|...|++.-.. +..                       -..-|..++..+.+.+.++.+.
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~-~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi  919 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSLV-LYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDAL  919 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCS-CTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-hcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHH
Confidence            4433345667788899999999999764211 100                       1123667788888888888888


Q ss_pred             HHHHHHHHCCCCCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 043969          206 DLFDGMITKGQLPN----VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLA  272 (300)
Q Consensus       206 ~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  272 (300)
                      ++-....+....-+    ...|..+..++...|++++|...+-.+.+...  -...+..|+..++..|..+
T Consensus       920 ~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          920 EFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             HHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHHHHHHHHHCCHH
T ss_pred             HHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHHHHHHHhCCChh
Confidence            88777665422112    12578888999999999999888877766533  3455666666666555443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.85  E-value=1.4  Score=30.33  Aligned_cols=30  Identities=10%  Similarity=0.039  Sum_probs=21.2

Q ss_pred             HhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969          115 FHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      .+.--.+..+|.+.+++++|+.+++.+...
T Consensus       122 ~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          122 IEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            344455777888888888888888776443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.60  E-value=9.6  Score=34.53  Aligned_cols=155  Identities=13%  Similarity=0.134  Sum_probs=81.4

Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH--HHHhCCCHHHHHHHHHHHHhCCCCCccccHH--HHHHHHHhcC
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD--GLSRAGNLDACKYFFDEMANKGCMPDVVCYT--VMITSYIAAG  199 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~~  199 (300)
                      .+...|+.+....++..+.+..   +......+.-  ++...|+.+.+..+.+.+.... .|....-.  .+.-+|+..|
T Consensus       499 i~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTG  574 (963)
T 4ady_A          499 CMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTG  574 (963)
T ss_dssp             HHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSC
T ss_pred             hhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCC
Confidence            3456677666666666665531   2222222333  3346677777777777776541 22222211  2334566677


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHH
Q 043969          200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKL-AEAHEVI  278 (300)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~  278 (300)
                      +.....+++..+.+.. ..+......+.-++...|+.+.+.++++.+.+.+ .|..+.-..+.-+....|.. .++...+
T Consensus       575 n~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L  652 (963)
T 4ady_A          575 NNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVL  652 (963)
T ss_dssp             CHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHH
T ss_pred             CHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHH
Confidence            8777777887777652 2233333333344444566555666665555432 34444333444444444432 5666777


Q ss_pred             HHHHHc
Q 043969          279 RHMVEK  284 (300)
Q Consensus       279 ~~~~~~  284 (300)
                      ..+...
T Consensus       653 ~~L~~D  658 (963)
T 4ady_A          653 DPLTKD  658 (963)
T ss_dssp             HHHHTC
T ss_pred             HHHccC
Confidence            777643

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.32  E-value=0.99  Score=36.88  Aligned_cols=61  Identities=7%  Similarity=0.044  Sum_probs=34.4

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhCC--CCCccccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969          152 HFTTLMDGLSRAGNLDACKYFFDEMANKG--CMPDVVCYTVMITSYIAAGELEKAQDLFDGMI  212 (300)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  212 (300)
                      +...+...|.+.|+++.|.+.+.++...-  ...-...+-.+++.+...+++..+...+.++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            44556666666666666666666665431  11123345555566666666666666666554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.63  E-value=3.7  Score=28.29  Aligned_cols=126  Identities=10%  Similarity=0.034  Sum_probs=62.6

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhC-CCCCcc-------ccHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHH-HH
Q 043969          154 TTLMDGLSRAGNLDACKYFFDEMANK-GCMPDV-------VCYTVMITSYIAAGELEKAQDLFDGMITK-GQLPNVF-TY  223 (300)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~-~~  223 (300)
                      -.-+..+...+.++.|+-+.+.+... +..|+.       .++..+..++...+++..|...|++..+. ..-|... +.
T Consensus        24 ~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~  103 (167)
T 3ffl_A           24 IDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVR  103 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence            33455666677777777776665432 112221       24456666777777777777777775432 1111111 11


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcChHHHHHH
Q 043969          224 NSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVS  292 (300)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~l~~  292 (300)
                      ..+.   .. .....         .....++...--.+..+|.+.|++++|+.+++.+..+.-.+.+.-
T Consensus       104 ~~~~---~~-ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm  159 (167)
T 3ffl_A          104 PSTG---NS-ASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINM  159 (167)
T ss_dssp             --------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHH
T ss_pred             cccc---cc-CCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHH
Confidence            0000   00 00000         001122334444466788899999999999888765553333333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.21  E-value=3.6  Score=27.53  Aligned_cols=68  Identities=6%  Similarity=0.027  Sum_probs=37.6

Q ss_pred             CCccccHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          182 MPDVVCYTVMITSYIAAGE---LEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       182 ~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .|+..+--....++.+..+   ..+++.+++.+...+..-.....--+.-++.+.|++++|.+..+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            3454444445555555543   3456666666665432212333444555666777777777777776664

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=88.83  E-value=0.0061  Score=49.81  Aligned_cols=216  Identities=10%  Similarity=0.094  Sum_probs=141.4

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      |+..|..++....+.|.+++.+..+...++..-.|.+.  +.|+-+|++.++..+.++++.       .||..-...+..
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~ID--teLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGD  152 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVE--TELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGD  152 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTT--HHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccH--HHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHH
Confidence            66778889999999999999999998877764445444  689999999999776544331       356666677777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC--------------------CCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSG--------------------FSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDP  148 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  148 (300)
                      -|...|.++.|.-+|..+....                    -..++.||..+-.+|...+++.-|.-.--.+.-   .+
T Consensus       153 rcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv---ha  229 (624)
T 3lvg_A          153 RCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HA  229 (624)
T ss_dssp             HHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CS
T ss_pred             HHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc---cH
Confidence            7888888777776665542211                    134677888888888888888776544333332   12


Q ss_pred             cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC------CCHH
Q 043969          149 SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITK-GQL------PNVF  221 (300)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~------p~~~  221 (300)
                      +  ....++..|-..|.+++.+.+++..... -......|+.|.-.|++- ++++..+-++..... +++      -...
T Consensus       230 d--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ah  305 (624)
T 3lvg_A          230 D--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAH  305 (624)
T ss_dssp             S--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTT
T ss_pred             H--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHh
Confidence            2  2345677788889999988888887643 245667788888777765 445444444432221 111      1223


Q ss_pred             HHHHHHHHHhccCCHHHHH
Q 043969          222 TYNSMIRGFCMAGKFDEAC  240 (300)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~  240 (300)
                      .|..++-.|.+-.+++.|.
T Consensus       306 LW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          306 LWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             CHHHHHHHHHHHTCHHHHH
T ss_pred             hHHHHHHHHhcchhHHHHH
Confidence            3555555666555665543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.77  E-value=7.7  Score=31.63  Aligned_cols=98  Identities=10%  Similarity=-0.080  Sum_probs=64.9

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcC--CCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC---CCCCcccc--HH
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVG--FDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK---GCMPDVVC--YT  189 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~~  189 (300)
                      +...+...|.+.|++++|.+.+.++....  ...-...+-.+++.+...+++..+...+......   +..|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            56778888888999999999998887642  2333466777888888889999988888877432   22222211  01


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 043969          190 VMITSYIAAGELEKAQDLFDGMITK  214 (300)
Q Consensus       190 ~li~~~~~~~~~~~a~~~~~~~~~~  214 (300)
                      .-...+...+++..|-..|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1111233467888888888776544

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=87.96  E-value=2.6  Score=31.60  Aligned_cols=211  Identities=11%  Similarity=0.084  Sum_probs=97.0

Q ss_pred             HHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCH---hhHHHHHHHHH
Q 043969           15 ILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDI---LTYNIVMCAKY   91 (300)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~   91 (300)
                      +.+...++.|+.+.+..+++.-...+...+...+ +.+...+..|+.+-+.    .+.+.|..++.   .-.+. +...+
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~-t~L~~A~~~g~~~~v~----~Ll~~g~~~~~~~~~g~t~-L~~A~   80 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGW-TPLHNAVQMSREDIVE----LLLRHGADPVLRKKNGATP-FLLAA   80 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCC-CHHHHHHHTTCHHHHH----HHHHTTCCTTCCCTTCCCH-HHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCC-cHHHHHHHcCCHHHHH----HHHHcCCCCcccCCCCCCH-HHHHH
Confidence            4556667788887776666653222222122222 3444555667765444    44455554432   22223 33344


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH---hHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhh------------HHHH
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDF---HTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLH------------FTTL  156 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------------~~~l  156 (300)
                      ..|+.+-+    +.+.+.|..++.   .-++.+ ...+..|+.+    +++.+.+.|..++...            -...
T Consensus        81 ~~~~~~~v----~~Ll~~g~~~~~~~~~g~t~L-~~A~~~~~~~----~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t~  151 (285)
T 1wdy_A           81 IAGSVKLL----KLFLSKGADVNECDFYGFTAF-MEAAVYGKVK----ALKFLYKRGANVNLRRKTKEDQERLRKGGATA  151 (285)
T ss_dssp             HHTCHHHH----HHHHHTTCCTTCBCTTCCBHH-HHHHHTTCHH----HHHHHHHTTCCTTCCCCCCHHHHHTTCCCCCH
T ss_pred             HcCCHHHH----HHHHHcCCCCCccCcccCCHH-HHHHHhCCHH----HHHHHHHhCCCcccccccHHHHHhhccCCCcH
Confidence            56665544    444445544432   122233 3334456654    3444445444433210            0123


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhCCCCCc---cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHh
Q 043969          157 MDGLSRAGNLDACKYFFDEMANKGCMPD---VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFT--YNSMIRGFC  231 (300)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~--~~~l~~~~~  231 (300)
                      +...+..|+.+-+..+++.   .|..++   ..-.+.+.. .+..++.....++++.+.+.|..++...  -...+...+
T Consensus       152 L~~A~~~~~~~~v~~Ll~~---~~~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~  227 (285)
T 1wdy_A          152 LMDAAEKGHVEVLKILLDE---MGADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAV  227 (285)
T ss_dssp             HHHHHHHTCHHHHHHHHHT---SCCCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHh---cCCCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHH
Confidence            3344556676655544432   133332   222333333 3455555445566666666766554321  112233345


Q ss_pred             ccCCHHHHHHHHH
Q 043969          232 MAGKFDEACTMMK  244 (300)
Q Consensus       232 ~~~~~~~a~~~~~  244 (300)
                      +.|+.+-+..+++
T Consensus       228 ~~~~~~~v~~Ll~  240 (285)
T 1wdy_A          228 EKKHLGLVQRLLE  240 (285)
T ss_dssp             HTTCHHHHHHHHH
T ss_pred             HcCCHHHHHHHHh
Confidence            5677655444443

>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=87.08  E-value=4.8  Score=26.54  Aligned_cols=73  Identities=12%  Similarity=0.068  Sum_probs=47.1

Q ss_pred             CcCHHHHHHHHHHHHccCc---HHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHh
Q 043969           42 RPFKNSYNAILHALLGIRQ---YKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFH  116 (300)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  116 (300)
                      .|+..+--....+++++.+   ..+++.+++.+.+.+..-....+-.+.-++.+.|++++|.+..+.+.+.  .|+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~N~  112 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNK  112 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTTCH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCCH
Confidence            4555543334445555544   4567788888877653223555666667888888888888888888776  45543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.82  E-value=12  Score=30.73  Aligned_cols=208  Identities=8%  Similarity=0.058  Sum_probs=123.7

Q ss_pred             cccHHHHHHHHHHhhh-----cCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhC-CCCCCHhhHHHHHHHH----Hh
Q 043969           23 VGLARKVVERFIKSKL-----FNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDE-GYAPDILTYNIVMCAK----YR   92 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~----~~   92 (300)
                      .++++.|++.+....+     .+..........++..|...++++...+.+..+.+. |..+.  ....++..+    ..
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            3788888887755432     233444557888999999999999988877766554 33222  223333322    22


Q ss_pred             cCCHHH--HHHHHHHHHh--CC-CCCC---HhHHHHHHHHHhcCCChHHHHHHHHHHHHc--CCCCc---HhhHHHHHHH
Q 043969           93 LGKLDQ--FHRLLDEMGR--SG-FSPD---FHTYNILLHVLGKGDKPLAALNLLNHMKEV--GFDPS---VLHFTTLMDG  159 (300)
Q Consensus        93 ~~~~~~--a~~~~~~~~~--~~-~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~  159 (300)
                      ....+.  -..+.+.+..  .| +-..   ......|...+...|++.+|.+++..+...  +....   ...+...++.
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            333222  1222222111  11 1111   123356778889999999999999998643  22211   2456677888


Q ss_pred             HHhCCCHHHHHHHHHHHHh----CCCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 043969          160 LSRAGNLDACKYFFDEMAN----KGCMPD--VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMA  233 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (300)
                      |...+++.+|..++..+..    ....|+  ...+...+..+...+++.+|-.               .|..+...+...
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~---------------~y~e~~~~~~~~  251 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQ---------------YLQEIYQTDAIK  251 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHH---------------HHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHH---------------HHHHHHhccccc
Confidence            9999999999999988642    211222  1234555555566666666543               366677777777


Q ss_pred             CCHHHHHHHHHHHH
Q 043969          234 GKFDEACTMMKEME  247 (300)
Q Consensus       234 ~~~~~a~~~~~~~~  247 (300)
                      ++......++..+.
T Consensus       252 ~d~~~~~~~L~~~v  265 (445)
T 4b4t_P          252 SDEAKWKPVLSHIV  265 (445)
T ss_dssp             SCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            87766655555443

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=86.27  E-value=11  Score=29.83  Aligned_cols=62  Identities=19%  Similarity=0.418  Sum_probs=34.4

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHcC
Q 043969          223 YNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGK--LAEAHEVIRHMVEKG  285 (300)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~  285 (300)
                      ...++.-|...|+.++|.+.++++..-.+. ...+...+..++-+.++  .+...+++..+.+.|
T Consensus       220 i~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~g  283 (358)
T 3eiq_C          220 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSS  283 (358)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCC
Confidence            466666677777777777777766532111 12333444444444332  345666666666666

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=84.93  E-value=8.6  Score=28.95  Aligned_cols=55  Identities=20%  Similarity=0.332  Sum_probs=37.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          194 SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      ...+.|++++|++....-++... -|...-..+++.+|-.|++++|.+=++-..+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P-~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            44567777777777776666533 36666677777777777777777777766654

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=84.62  E-value=19  Score=31.06  Aligned_cols=124  Identities=10%  Similarity=0.084  Sum_probs=75.9

Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHH----HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVM----ITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      .+.+.|...+....+.. ..+......+    .......+...++...+.......  ++.......+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHH
Confidence            37788888888776442 2233222222    222233442455566666554432  3444455555556678999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcChHHHHH
Q 043969          240 CTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLV  291 (300)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~l~  291 (300)
                      ...|+.|...... .....--+.+++...|+.++|..+|+++.+...|-.++
T Consensus       305 ~~~~~~l~~~~~~-~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~~~fYg~l  355 (618)
T 1qsa_A          305 NTWLARLPMEAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYPMV  355 (618)
T ss_dssp             HHHHHHSCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHHHH
T ss_pred             HHHHHHccccccc-cHhHHHHHHHHHHHcCCHHHHHHHHHHHhcCCChHHHH
Confidence            9999888763211 23333345567888999999999999998766555544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=83.50  E-value=26  Score=31.87  Aligned_cols=19  Identities=16%  Similarity=0.036  Sum_probs=8.2

Q ss_pred             HhcCCChHHHHHHHHHHHH
Q 043969          125 LGKGDKPLAALNLLNHMKE  143 (300)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~  143 (300)
                      |+..|+.....+++..+.+
T Consensus       570 yaGTGn~~aIq~LL~~~~~  588 (963)
T 4ady_A          570 YAGTGNNSAVKRLLHVAVS  588 (963)
T ss_dssp             TTTSCCHHHHHHHHHHHHH
T ss_pred             hcCCCCHHHHHHHHHHhcc
Confidence            4444444444444444443

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=82.07  E-value=18  Score=29.05  Aligned_cols=232  Identities=8%  Similarity=-0.020  Sum_probs=128.8

Q ss_pred             HHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcC----HHHHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhH--
Q 043969           11 RTFNILICTCGEVGLARKVVERFIKSKLFNFRPF----KNSYNAILHALLGIR-QYKLIEWVYQQMSDEGYAPDILTY--   83 (300)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~--   83 (300)
                      .....|...|.+.|++++..+++......-...+    ......++..+.... ..+.-.++..+..+..-. +-.+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            3456677889999999999999988755321222    125667787776643 334444444444331100 11223  


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----HhHHHHHHHHHhcCCChHHHHHHHHHHHHc--CCCCcHhh
Q 043969           84 ----NIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD-----FHTYNILLHVLGKGDKPLAALNLLNHMKEV--GFDPSVLH  152 (300)
Q Consensus        84 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  152 (300)
                          .-++..|...|++.+|.+++..+.+.=-..|     ..++..-+..|...++..++...+......  .+.+++..
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                2577889999999999999988865311112     345666677888999999999999877543  22233322


Q ss_pred             HHH----HHHHHH-hCCCHHHHHHHHHHHHhC-C-C-CC---ccccHHHHHHHHHhcCCHHHHHHHHH-HHHHCCCCCCH
Q 043969          153 FTT----LMDGLS-RAGNLDACKYFFDEMANK-G-C-MP---DVVCYTVMITSYIAAGELEKAQDLFD-GMITKGQLPNV  220 (300)
Q Consensus       153 ~~~----l~~~~~-~~~~~~~a~~~~~~~~~~-~-~-~~---~~~~~~~li~~~~~~~~~~~a~~~~~-~~~~~~~~p~~  220 (300)
                      -..    -.-.+. ..+++..|...|-+..+. . . .|   +...|..+...  -.++..+...++. .....-..|..
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aL--l~~~r~el~~~l~~~~~~~~~~pei  256 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKI--MLGQSDDVNQLVSGKLAITYSGRDI  256 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH--HTTCGGGHHHHHHSHHHHTTCSHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHH--HcCCHHHHHHHhccccccccCCccH
Confidence            211    122345 789999998888665422 1 0 11   11223222222  2233222222221 11111123556


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHH
Q 043969          221 FTYNSMIRGFCMAGKFDEACTMMKEM  246 (300)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (300)
                      ..+..++.+| ..+++.+...+++..
T Consensus       257 ~~l~~L~~a~-~~~dl~~f~~iL~~~  281 (394)
T 3txn_A          257 DAMKSVAEAS-HKRSLADFQAALKEY  281 (394)
T ss_dssp             HHHHHHHHHH-HTTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHH-HhCCHHHHHHHHHHH
Confidence            6666666665 445666655555543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=81.38  E-value=9.8  Score=25.46  Aligned_cols=21  Identities=19%  Similarity=0.339  Sum_probs=9.7

Q ss_pred             HHHHhCCCHHHHHHHHHHHHh
Q 043969          158 DGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      -++.+.|++++|.+..+.+.+
T Consensus        85 vg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           85 IGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            344444444444444444444

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=81.20  E-value=14  Score=27.20  Aligned_cols=90  Identities=9%  Similarity=0.048  Sum_probs=48.0

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhC--CCCC----ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANK--GCMP----DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRG  229 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  229 (300)
                      -++.+....++++|..++++..+.  +.++    ........+..-.....-.-+..+.+++..   .++.......+..
T Consensus        24 eLDv~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~~---~~~~~~~r~~v~~  100 (235)
T 2d2s_A           24 EIDIELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSILS---SNEIVHLKSGTEN  100 (235)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHHHHH
Confidence            456677777788887777766432  2221    111222233333333333344444444422   3455556666677


Q ss_pred             HhccCCHHHHHHHHHHHHH
Q 043969          230 FCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~  248 (300)
                      +.+.|+.++|.++|-+...
T Consensus       101 L~rLg~~~~A~~lfL~~rs  119 (235)
T 2d2s_A          101 MIKLGLPEQALDLFLQNRS  119 (235)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCChhHHHHHHHHHHH
Confidence            7777777777777765553

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=80.33  E-value=7.7  Score=28.91  Aligned_cols=208  Identities=14%  Similarity=0.131  Sum_probs=98.4

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHh---hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---hHHHHHHH
Q 043969           50 AILHALLGIRQYKLIEWVYQQMSDEGYAPDIL---TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDF---HTYNILLH  123 (300)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~  123 (300)
                      ..+...++.|+.+.+..++    +.|..++..   .-...+...+..|+.+-+.    .+.+.|..++.   .-.+.+ .
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll----~~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~----~Ll~~g~~~~~~~~~g~t~L-~   77 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLL----EGGANVNFQEEEGGWTPLHNAVQMSREDIVE----LLLRHGADPVLRKKNGATPF-L   77 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHH----HTTCCTTCCCTTTCCCHHHHHHHTTCHHHHH----HHHHTTCCTTCCCTTCCCHH-H
T ss_pred             hHHHHHHHcCCHHHHHHHH----HcCCCcccccCCCCCcHHHHHHHcCCHHHHH----HHHHcCCCCcccCCCCCCHH-H
Confidence            3455566778876655554    444443321   1123444555677765444    44445544432   112222 2


Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCcH---hhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcccc------------H
Q 043969          124 VLGKGDKPLAALNLLNHMKEVGFDPSV---LHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVC------------Y  188 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------------~  188 (300)
                      ..+..|+.+    +++.+.+.|..++.   ...+. +...+..|+.+-+.    .+.+.|..++...            -
T Consensus        78 ~A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~-L~~A~~~~~~~~~~----~Ll~~g~~~~~~~~~~~~~~~~~~~g  148 (285)
T 1wdy_A           78 LAAIAGSVK----LLKLFLSKGADVNECDFYGFTA-FMEAAVYGKVKALK----FLYKRGANVNLRRKTKEDQERLRKGG  148 (285)
T ss_dssp             HHHHHTCHH----HHHHHHHTTCCTTCBCTTCCBH-HHHHHHTTCHHHHH----HHHHTTCCTTCCCCCCHHHHHTTCCC
T ss_pred             HHHHcCCHH----HHHHHHHcCCCCCccCcccCCH-HHHHHHhCCHHHHH----HHHHhCCCcccccccHHHHHhhccCC
Confidence            333445544    44455555554432   12222 33445667765444    4444444443220            1


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHH--HHHHHH
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQLPN---VFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLV--YNTLVS  263 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~  263 (300)
                      ...+...+..|+.+-+..+++..   |..++   ....+.+..+ +..++.....++++.+.+.|..++...  -.+.+.
T Consensus       149 ~t~L~~A~~~~~~~~v~~Ll~~~---~~~~~~~~~~g~t~l~~a-~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~  224 (285)
T 1wdy_A          149 ATALMDAAEKGHVEVLKILLDEM---GADVNACDNMGRNALIHA-LLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLI  224 (285)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHTS---CCCTTCCCTTSCCHHHHH-HHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHH
T ss_pred             CcHHHHHHHcCCHHHHHHHHHhc---CCCCCccCCCCCCHHHHH-HHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHH
Confidence            12344445677776666555431   33222   2222333333 334554445566677777776655321  123334


Q ss_pred             HHHhcCCHHHHHHHHH
Q 043969          264 NLRNAGKLAEAHEVIR  279 (300)
Q Consensus       264 ~~~~~g~~~~a~~~~~  279 (300)
                      ..+..|+.+-+..+++
T Consensus       225 ~A~~~~~~~~v~~Ll~  240 (285)
T 1wdy_A          225 LAVEKKHLGLVQRLLE  240 (285)
T ss_dssp             HHHHTTCHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHh
Confidence            4456677765555544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=80.26  E-value=8.3  Score=23.94  Aligned_cols=77  Identities=12%  Similarity=0.095  Sum_probs=36.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 043969          165 NLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMK  244 (300)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (300)
                      ..++|..+-+.+...+.  ....--+-+..+.+.|++++|..+.+...    .||...|..+-.  .+.|..+++..-+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            45556555555555432  11111122234455666666655544332    455555554433  24555555555555


Q ss_pred             HHHHC
Q 043969          245 EMESR  249 (300)
Q Consensus       245 ~~~~~  249 (300)
                      ++...
T Consensus        93 ~la~s   97 (115)
T 2uwj_G           93 GLGGS   97 (115)
T ss_dssp             HHHTC
T ss_pred             HHHhC
Confidence            55544

---

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	300
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.88
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.47
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.46
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.44
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.43
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.4
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.35
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.31
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.28
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.15
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.09
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.08
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.96
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.92
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.87
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.83
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.81
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.78
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.74
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.73
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.72
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.66
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.57
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.57
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.56
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.39
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.38
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.35
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.34
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.18
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.17
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.17
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.16
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.16
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.14
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.14
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.11
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.05
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.05
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.04
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.03
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.97
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.92
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.88
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.8
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.53
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.39
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.37
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.28
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.06
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.32
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.87
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.89
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.62
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.78
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.68
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	87.87

>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=99.88  E-value=8.5e-19  Score=140.12  Aligned_cols=282  Identities=12%  Similarity=0.030  Sum_probs=218.6

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCC----------
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYA----------   77 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------   77 (300)
                      -++..+..+...+.+.|++++|.+.+++....+ +-+..+|..+...+.+.|++++|...+....+....          
T Consensus        31 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  109 (388)
T d1w3ba_          31 DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAA  109 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccc
Confidence            356777778888888888888888888877664 334557888888888888888888887766554221          


Q ss_pred             ---------------------------------------------------------CCHhhHHHHHHHHHhcCCHHHHH
Q 043969           78 ---------------------------------------------------------PDILTYNIVMCAKYRLGKLDQFH  100 (300)
Q Consensus        78 ---------------------------------------------------------~~~~~~~~l~~~~~~~~~~~~a~  100 (300)
                                                                               .+...+..+...+...|++++|.
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  189 (388)
T d1w3ba_         110 ALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAI  189 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHH
Confidence                                                                     01233344445566677888888


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCC
Q 043969          101 RLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKG  180 (300)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (300)
                      ..++...... +.+...+..+...+...|++++|...++...... +.+...+..+...+.+.|++++|...|+...+..
T Consensus       190 ~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  267 (388)
T d1w3ba_         190 HHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ  267 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            8888776654 4456778888888999999999999999888764 4466777888889999999999999999988763


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 043969          181 CMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNT  260 (300)
Q Consensus       181 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (300)
                       +-+..++..+...+...|++++|.+.++..... .+.+...+..+...+...|++++|...+++..+.. +-+..++..
T Consensus       268 -p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  344 (388)
T d1w3ba_         268 -PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSN  344 (388)
T ss_dssp             -SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence             235667888899999999999999999988876 34578888999999999999999999999988752 234677888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcC-----hHHHHHHHhh
Q 043969          261 LVSNLRNAGKLAEAHEVIRHMVEKG-----KYIHLVSKFK  295 (300)
Q Consensus       261 li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~l~~~~~  295 (300)
                      +..+|.+.|++++|.+.|++.++..     .|..+...+.
T Consensus       345 la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~  384 (388)
T d1w3ba_         345 LASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLK  384 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            8999999999999999999998865     3444444443

>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=2.3e-18  Score=137.62  Aligned_cols=264  Identities=13%  Similarity=0.019  Sum_probs=220.6

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCC
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGK   95 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (300)
                      +...+.+.|++++|.+.++++.... +-+...+..+...+.+.|++++|...|+++++..+. +..++..+..++.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcc
Confidence            3456678899999999999988764 335668899999999999999999999999987543 67889999999999999


Q ss_pred             HHHHHHHHHHHHhCCC----------------------------------------------------------------
Q 043969           96 LDQFHRLLDEMGRSGF----------------------------------------------------------------  111 (300)
Q Consensus        96 ~~~a~~~~~~~~~~~~----------------------------------------------------------------  111 (300)
                      +++|...+........                                                                
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            9999999887755421                                                                


Q ss_pred             ---CCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccH
Q 043969          112 ---SPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCY  188 (300)
Q Consensus       112 ---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (300)
                         +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++...... +.+...+
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             ccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence               1123455566677788899999999999988763 4466788889999999999999999999988764 3456678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNA  268 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  268 (300)
                      ..+...+.+.|++++|...|++..+... -+..++..+...+...|++++|.+.++..... .+.+...+..+...+...
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~  318 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHC
Confidence            8888999999999999999999988643 36788999999999999999999999998875 355778888899999999


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 043969          269 GKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       269 g~~~~a~~~~~~~~~~~  285 (300)
                      |++++|.+.+++.++..
T Consensus       319 ~~~~~A~~~~~~al~~~  335 (388)
T d1w3ba_         319 GNIEEAVRLYRKALEVF  335 (388)
T ss_dssp             TCHHHHHHHHHHHTTSC
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999998765

>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=99.74  E-value=2.1e-15  Score=117.64  Aligned_cols=241  Identities=12%  Similarity=-0.003  Sum_probs=106.0

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      ...+.+.|++++|+..|++..+.+ +-+..+|..+..++...|++++|...|++..+..+. +...+..+...+...|++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccccc
Confidence            334445555555555555554432 222335555555555555555555555555544322 344455555555555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHhHH-HHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHH
Q 043969           97 DQFHRLLDEMGRSGFSPDFHTY-NILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDE  175 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (300)
                      ++|.+.++......  |+.... ........                    ..+.......+..+...+...++...+..
T Consensus       104 ~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         104 RQACEILRDWLRYT--PAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             HHHHHHHHHHHHTS--TTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhc--cchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            55555555554432  111000 00000000                    00000000011112222334444444444


Q ss_pred             HHhCCC-CCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC
Q 043969          176 MANKGC-MPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPN  254 (300)
Q Consensus       176 ~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  254 (300)
                      ..+... .++...+..+...+...|++++|+..+++....... +..+|..+..+|...|++++|.+.+++..+.. +-+
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~  239 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGY  239 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hcc
Confidence            433211 112334444455555555555555555555443221 34455555555555555555555555555431 113


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          255 FLVYNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       255 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      ..++..+..+|.+.|++++|++.|++.++
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            34455555555555555555555555544

>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=99.74  E-value=4.8e-15  Score=115.58  Aligned_cols=218  Identities=10%  Similarity=-0.042  Sum_probs=142.1

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      |-+..+|..+...+...|++++|...+.+..... +-+...|..+...+...|++++|.+.+++....... ....+...
T Consensus        50 P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~  127 (323)
T d1fcha_          50 PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPA  127 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC--
T ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccchhhHHHhccc-hHHHHHhh
Confidence            3457789999999999999999999999988764 334568888999999999999999999999876322 11111100


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC-CCcHhhHHHHHHHHHhCCC
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGF-DPSVLHFTTLMDGLSRAGN  165 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  165 (300)
                      .... ...                   +.......+..+...+...++...+.+..+... ..+...+..+...+...|+
T Consensus       128 ~~~~-~~~-------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  187 (323)
T d1fcha_         128 EEGA-GGA-------------------GLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  187 (323)
T ss_dssp             ---------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             hhhh-hhc-------------------ccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHH
Confidence            0000 000                   000000011112223445566666666554321 2345566667777777788


Q ss_pred             HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 043969          166 LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKE  245 (300)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (300)
                      +++|...++...... +-+...|..+..++...|++++|.+.|++..+... -+..++..+..+|.+.|++++|++.|++
T Consensus       188 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~  265 (323)
T d1fcha_         188 YDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLE  265 (323)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             Hhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888887776552 22455677777778888888888888887776532 2566777788888888888888888877


Q ss_pred             HHH
Q 043969          246 MES  248 (300)
Q Consensus       246 ~~~  248 (300)
                      .++
T Consensus       266 al~  268 (323)
T d1fcha_         266 ALN  268 (323)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>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=99.47  E-value=5.3e-11  Score=91.68  Aligned_cols=188  Identities=12%  Similarity=0.078  Sum_probs=135.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHH
Q 043969           95 KLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFD  174 (300)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (300)
                      ..++|..++++..+...+.+...|...+....+.|+++.|..+|+++.+.........|...+....+.|+.+.|..+|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45677888888776544555667777778888888888888888888775433334567888888888888888888888


Q ss_pred             HHHhCCCCCccccHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCC-CC
Q 043969          175 EMANKGCMPDVVCYTVMITS-YIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRG-CN  252 (300)
Q Consensus       175 ~~~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~  252 (300)
                      ...+.+ +.+...|...... +...|+.+.|..+|+.+.+. .+.+...|...+..+...|+++.|..+|++..+.. ..
T Consensus       159 ~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            887663 2233344433332 33457888888888888876 33367788888888888888888888888887753 34


Q ss_pred             CC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          253 PN--FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       253 ~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      |.  ...|...+..-...|+.+.+..+++++.+.
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33  346777777667778888888888887653

>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=99.46  E-value=2.6e-11  Score=93.63  Aligned_cols=230  Identities=9%  Similarity=0.025  Sum_probs=171.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLG-KLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      .|+.+...+.+.+.+++|+++++++++..+. +...|+....++...| ++++|+..++...+.. +-+..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            6777777888888999999999999987544 6778888888887766 5899999999987775 45678888888899


Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCC-----
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGE-----  200 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-----  200 (300)
                      .+.|++++|+..++++.+.. +.+...|..+...+...|++++|...++.+.+.+ +-+...|+.+...+.+.+.     
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhh
Confidence            99999999999999998873 4567888889999999999999999999998864 2356677777666666554     


Q ss_pred             -HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhc---------C
Q 043969          201 -LEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCN-PNFLVYNTLVSNLRNA---------G  269 (300)
Q Consensus       201 -~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~---------g  269 (300)
                       +++|++.+.+..+... .+...|..+...+... ..+++.+.++...+.... .+...+..+...|...         .
T Consensus       201 ~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLVP-HNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence             6788888888887643 3677777776666544 457777777777664222 2345566666666432         2


Q ss_pred             CHHHHHHHHHHHH
Q 043969          270 KLAEAHEVIRHMV  282 (300)
Q Consensus       270 ~~~~a~~~~~~~~  282 (300)
                      .+++|..+++.+.
T Consensus       279 ~~~ka~~l~~~l~  291 (315)
T d2h6fa1         279 ILNKALELCEILA  291 (315)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3555666665544

>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=99.44  E-value=1.3e-10  Score=90.91  Aligned_cols=269  Identities=11%  Similarity=-0.024  Sum_probs=193.6

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcC----HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCC----CC-CHhhHHHH
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPF----KNSYNAILHALLGIRQYKLIEWVYQQMSDEGY----AP-DILTYNIV   86 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~-~~~~~~~l   86 (300)
                      ....+...|++++|++.+++........+    ...+..+...+...|++++|...+++..+...    .+ ....+..+
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            34556789999999999999776532111    23677788899999999999999998876321    11 13345566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh----CCCCCC---HhHHHHHHHHHhcCCChHHHHHHHHHHHHcCC----CCcHhhHHH
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGR----SGFSPD---FHTYNILLHVLGKGDKPLAALNLLNHMKEVGF----DPSVLHFTT  155 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~----~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~  155 (300)
                      ...+...|++..+...+.....    .+....   ...+..+...+...|+++.+...+........    ......+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            6788889999999998877643    221222   23455667788899999999999988876422    223345566


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhC----CCCC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---CCHHHHHHH
Q 043969          156 LMDGLSRAGNLDACKYFFDEMANK----GCMP--DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL---PNVFTYNSM  226 (300)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---p~~~~~~~l  226 (300)
                      ....+...++...+...+......    +..+  ....+..+...+...|++++|...+....+....   .....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            667788889999999888776442    1111  1234556677788899999999999987654322   224566778


Q ss_pred             HHHHhccCCHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          227 IRGFCMAGKFDEACTMMKEMES----RGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                      ..++...|++++|...+++...    .+..|+ ...+..+..+|...|++++|.+.+++.++.
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            8899999999999999998764    244443 356777888999999999999999988664

>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=99.43  E-value=9.4e-11  Score=90.41  Aligned_cols=233  Identities=7%  Similarity=0.004  Sum_probs=176.8

Q ss_pred             hHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccC-cHHHHHHHHHHhhhCCCCCCHhhHHHHHH
Q 043969           10 ARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIR-QYKLIEWVYQQMSDEGYAPDILTYNIVMC   88 (300)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (300)
                      ...++.+...+.+.+..++|++.++++...+ +-+...|+....++...| ++++|+..++...+..+. +..+|+.+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            4566777778888899999999999998874 444558888888888876 589999999999988655 7889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCC---
Q 043969           89 AKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGN---  165 (300)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  165 (300)
                      .+.+.|++++|+..++++.+.. +.+...|..+...+...|++++|++.++.+.+.. +.+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998875 5578899999999999999999999999999974 4466778777666666554   


Q ss_pred             ---HHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhcc--------
Q 043969          166 ---LDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL-PNVFTYNSMIRGFCMA--------  233 (300)
Q Consensus       166 ---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~--------  233 (300)
                         +++|...+....+.. +.+...|+.+...+.. ...+++.+.++...+.... .+...+..++..|...        
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence               578888888887763 3356667766665544 4457777888777654322 2455666666666432        


Q ss_pred             -CCHHHHHHHHHHHHH
Q 043969          234 -GKFDEACTMMKEMES  248 (300)
Q Consensus       234 -~~~~~a~~~~~~~~~  248 (300)
                       ..+++|.+++..+..
T Consensus       277 ~~~~~ka~~l~~~l~~  292 (315)
T d2h6fa1         277 EDILNKALELCEILAK  292 (315)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence             224555555555443

>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=99.40  E-value=2.5e-10  Score=87.82  Aligned_cols=221  Identities=10%  Similarity=0.012  Sum_probs=167.2

Q ss_pred             HHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHc--------------cCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHH
Q 043969           26 ARKVVERFIKSKLFNFRPFKNSYNAILHALLG--------------IRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKY   91 (300)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (300)
                      .+.+..+|+++.... +.+...|...+.-+..              .+..++|..+|++..+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            456777787766542 3334455554443322              2345788999999987655556778888888899


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH-HHhCCCHHHHH
Q 043969           92 RLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG-LSRAGNLDACK  170 (300)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  170 (300)
                      +.|+++.|..+++.+.+........+|...+....+.|+.+.|.++|++..+.+ +.+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            999999999999999876422234578899999999999999999999998874 3344445444433 44568999999


Q ss_pred             HHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 043969          171 YFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKG-QLP--NVFTYNSMIRGFCMAGKFDEACTMMKEME  247 (300)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (300)
                      .+|+.+.+. .+.+...|...+....+.|+++.|..+|++..+.. ..|  ....|...+..-...|+.+.+..+.+++.
T Consensus       190 ~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999876 24467789999999999999999999999988763 333  24678888888788899999999999887


Q ss_pred             HC
Q 043969          248 SR  249 (300)
Q Consensus       248 ~~  249 (300)
                      +.
T Consensus       269 ~~  270 (308)
T d2onda1         269 TA  270 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            63

>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=99.35  E-value=2.5e-11  Score=90.96  Aligned_cols=219  Identities=9%  Similarity=-0.071  Sum_probs=136.6

Q ss_pred             cccHHHHHHHHHHhhhcCC-Cc--CHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 043969           23 VGLARKVVERFIKSKLFNF-RP--FKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQF   99 (300)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (300)
                      ..+.+.++..+.+...... .+  ...+|..+..++.+.|++++|.+.|++.++..+. +..+|+.+..++.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHh
Confidence            3455666666666544321 11  1227777888888999999999999998887543 778888888899999999999


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          100 HRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      +..|+++.+.. +.+..++..+..++...|++++|...++...+.. +.+......+...+.+.+..+....+.......
T Consensus        91 ~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          91 YEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            99999888764 4456678888888888999999999998888763 334444334444455555555555555554443


Q ss_pred             CCCCccccHHHHHHHHHhcCC----HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          180 GCMPDVVCYTVMITSYIAAGE----LEKAQDLFDGMITKGQLP-NVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       180 ~~~~~~~~~~~li~~~~~~~~----~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      .  ++...++ ++..+.....    .+.+...+......  .| ...+|..+...+...|++++|.+.|+..+..
T Consensus       169 ~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         169 D--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             C--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             c--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            1  1221222 2222222211    22222221111111  11 2245666777888888888888888887764

>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=99.31  E-value=1.5e-10  Score=86.66  Aligned_cols=218  Identities=11%  Similarity=-0.054  Sum_probs=149.9

Q ss_pred             cHHHHHHHHHHhhhCCC-CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHH
Q 043969           60 QYKLIEWVYQQMSDEGY-AP--DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALN  136 (300)
Q Consensus        60 ~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (300)
                      +.+.++.-+++...... .+  ...+|..+..+|.+.|++++|...|++..+.. |-+..+|..+..++.+.|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            45566666667665422 11  23467777889999999999999999998875 5578899999999999999999999


Q ss_pred             HHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 043969          137 LLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQ  216 (300)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  216 (300)
                      .|++..+.. +.+..++..+..++...|++++|...|+...+.. +.+......+...+.+.+..+.+..+.........
T Consensus        93 ~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          93 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            999999874 3456678888999999999999999999998763 22344444444555666666666666666555432


Q ss_pred             CCCHHHHHHHHHHHhccCC----HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          217 LPNVFTYNSMIRGFCMAGK----FDEACTMMKEMESRGCNPN-FLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       217 ~p~~~~~~~l~~~~~~~~~----~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+  ..++ ++..+.....    .+.+...+......  .|+ ..++..+...+...|++++|.+.|++.++.+
T Consensus       171 ~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         171 EQ--WGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             CS--THHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hh--hhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            22  2222 2233322222    22222222211111  122 3466778889999999999999999999876

>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=99.28  E-value=2.7e-11  Score=94.50  Aligned_cols=258  Identities=10%  Similarity=-0.019  Sum_probs=172.3

Q ss_pred             HHHHhhccccHHHHHHHHHHhhhcCCCcCHH-HHHHHH---HHHH-------ccCcHHHHHHHHHHhhhCCCCCCHhhHH
Q 043969           16 LICTCGEVGLARKVVERFIKSKLFNFRPFKN-SYNAIL---HALL-------GIRQYKLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~---~~~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      ++......+..++|++++.+....  .|+.. .|+..-   ..+.       ..|++++|+.+++...+..++ +...|.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            333333334458999999988776  45543 443322   2222       334578899999998887544 677777


Q ss_pred             HHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHhHHH-HHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH
Q 043969           85 IVMCAKYRLG--KLDQFHRLLDEMGRSGFSPDFHTYN-ILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS  161 (300)
Q Consensus        85 ~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (300)
                      .+..++...+  ++++|...+..+.... +++...+. .....+...+.+++|+..++.+.+.. +-+...|+.+...+.
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~  189 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLP  189 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            7777766655  5889999999987764 34555554 44567778899999999999888874 446778888888888


Q ss_pred             hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 043969          162 RAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACT  241 (300)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (300)
                      +.|++++|...+....+.  .|+   .......+...+..+++...+........ ++...+..+...+...+++++|..
T Consensus       190 ~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         190 QLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHH
Confidence            888887765555433322  111   11223334555666677777777666532 344455566667777788888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          242 MMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      .+.+..+.. +.+...+..+..++...|+.++|.+.++++++.+
T Consensus       264 ~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         264 ELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            887776642 2244667777778888888888888888888765

>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=99.15  E-value=8.2e-08  Score=74.46  Aligned_cols=237  Identities=10%  Similarity=0.007  Sum_probs=168.4

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HhH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPD----ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPD----FHT  117 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~  117 (300)
                      ........+...|++++|++++++..+.....+    ..++..+...+...|++++|...+++...... .++    ...
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            334455667899999999999999987643222    24566777889999999999999998754311 111    234


Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHc----CCCC---cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCC----CCccc
Q 043969          118 YNILLHVLGKGDKPLAALNLLNHMKEV----GFDP---SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGC----MPDVV  186 (300)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~  186 (300)
                      +..+...+...|++..+...+......    +.+.   ....+..+...+...|+++.+...+........    .....
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            566667888999999999998876542    1111   123455677888999999999999988865421    22233


Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC---CHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITK----GQLP--NVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP---NFLV  257 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~  257 (300)
                      .+......+...++...+...+.+....    +..+  ....+..+...+...|++++|...++.........   ....
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            4555667778899999999888776542    1111  12345667778889999999999998877542222   2345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 043969          258 YNTLVSNLRNAGKLAEAHEVIRHMVE  283 (300)
Q Consensus       258 ~~~li~~~~~~g~~~~a~~~~~~~~~  283 (300)
                      +..+..++...|++++|.+.++++++
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            56678889999999999999999874

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.09  E-value=3.3e-09  Score=80.64  Aligned_cols=198  Identities=12%  Similarity=0.076  Sum_probs=95.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC----CCCC-CHhHHHHHHHHHhcCCChHHHHHHHHHHHHc----CC-CCcHhhHHHHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRS----GFSP-DFHTYNILLHVLGKGDKPLAALNLLNHMKEV----GF-DPSVLHFTTLM  157 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~  157 (300)
                      ..|...+++++|.+.|.+....    +-++ ...+|..+..+|.+.|++++|...++...+.    +. .....++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            3455555555555555554321    1111 1234555555666666666666666554332    10 01123334444


Q ss_pred             HHHH-hCCCHHHHHHHHHHHHhC----CCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----CH-HHHHH
Q 043969          158 DGLS-RAGNLDACKYFFDEMANK----GCMP-DVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP-----NV-FTYNS  225 (300)
Q Consensus       158 ~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-----~~-~~~~~  225 (300)
                      ..|. ..|++++|...++...+.    +..+ ...++..+...+...|++++|.+.|+++.......     .. ..+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            4443 346666666666655321    1111 12345556666666777777777776665542111     11 12333


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHCCCC-CC---HHHHHHHHHHHHh--cCCHHHHHHHHHHHHHcC
Q 043969          226 MIRGFCMAGKFDEACTMMKEMESRGCN-PN---FLVYNTLVSNLRN--AGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~li~~~~~--~g~~~~a~~~~~~~~~~~  285 (300)
                      .+..+...|+++.|.+.+++..+.... ++   ......++.++..  .+.+++|+..|+++.+.+
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD  270 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcC
Confidence            444555667777777776666553211 11   1233445555443  234666666666655555

>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=99.08  E-value=1.1e-09  Score=85.26  Aligned_cols=234  Identities=7%  Similarity=-0.021  Sum_probs=171.4

Q ss_pred             hccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccC--cHHHHHHHHHHhhhCCCCCCHhhHH-HHHHHHHhcCCHH
Q 043969           21 GEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIR--QYKLIEWVYQQMSDEGYAPDILTYN-IVMCAKYRLGKLD   97 (300)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~   97 (300)
                      ...+++++|+..++.....+ +-+...|..+..++...+  ++++|...++.+.+..++ +...+. .....+...+.++
T Consensus        84 ~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccH
Confidence            34456889999999987764 345557777777776665  488999999999887533 555554 4446777789999


Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 043969           98 QFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMA  177 (300)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (300)
                      +|+..++.+.... +-+...|..+..++.+.|++++|...+....+.  .|..   ..+...+...+..+++...+....
T Consensus       162 ~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l  235 (334)
T d1dcea1         162 EELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWL  235 (334)
T ss_dssp             HHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHH
Confidence            9999999988875 557888999999999999998887666554443  1111   123334455667777888887776


Q ss_pred             hCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCH-H
Q 043969          178 NKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNF-L  256 (300)
Q Consensus       178 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~  256 (300)
                      ... +++...+..+...+...++.++|...+.+..+... -+..++..+..++...|++++|.+.++...+.  .|+. .
T Consensus       236 ~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~  311 (334)
T d1dcea1         236 LGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAA  311 (334)
T ss_dssp             HSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHH
T ss_pred             HhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHH
Confidence            653 44566777788888889999999999998877632 25677888999999999999999999999985  5654 4


Q ss_pred             HHHHHHHHHH
Q 043969          257 VYNTLVSNLR  266 (300)
Q Consensus       257 ~~~~li~~~~  266 (300)
                      .|..+...+.
T Consensus       312 y~~~L~~~~~  321 (334)
T d1dcea1         312 YLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            4555544444

>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=98.96  E-value=8.3e-08  Score=67.88  Aligned_cols=122  Identities=11%  Similarity=-0.018  Sum_probs=85.6

Q ss_pred             HHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCH
Q 043969           17 ICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKL   96 (300)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (300)
                      ...+...|++++|++.|.+..    +|+..+|..+..++...|++++|++.|++.++..+. +...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccH
Confidence            455567788888888887652    456667778888888888888888888888877544 677788888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCC----------------HhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           97 DQFHRLLDEMGRSGFSPD----------------FHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      ++|...|++..... +.+                ..++..+..++.+.|++++|.+.+......
T Consensus        87 ~~A~~~~~kAl~~~-~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          87 DLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhC-ccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            88888888775431 111                133444555666666666666666666554

>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=98.92  E-value=9.8e-08  Score=72.30  Aligned_cols=202  Identities=11%  Similarity=-0.017  Sum_probs=137.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHh
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDE----GYAP-DILTYNIVMCAKYRLGKLDQFHRLLDEMGRS----GF-SPDFH  116 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~  116 (300)
                      .|......|...+++++|.+.|.++.+.    +-++ -..+|..+..+|.+.|++++|.+.++.....    |. .....
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            3555677888999999999999988763    2111 2457888899999999999999999876432    21 11134


Q ss_pred             HHHHHHHHHh-cCCChHHHHHHHHHHHHc----CCCC-cHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCcc-----
Q 043969          117 TYNILLHVLG-KGDKPLAALNLLNHMKEV----GFDP-SVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDV-----  185 (300)
Q Consensus       117 ~~~~l~~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----  185 (300)
                      ++..+...|. ..|++++|+..+++..+.    +.++ ...++..+...+...|++++|...|+...........     
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            5556666664 469999999999887542    2111 1345788899999999999999999998775322111     


Q ss_pred             -ccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC---HHHHHHHHHHHhc--cCCHHHHHHHHHHHHH
Q 043969          186 -VCYTVMITSYIAAGELEKAQDLFDGMITKGQL-PN---VFTYNSMIRGFCM--AGKFDEACTMMKEMES  248 (300)
Q Consensus       186 -~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~  248 (300)
                       ..+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|+.-|+.+.+
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence             12344555677899999999999998765321 12   2345666666654  3457777777765443

>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=98.87  E-value=2.6e-07  Score=65.20  Aligned_cols=123  Identities=7%  Similarity=-0.119  Sum_probs=87.7

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ...+...|+++.|++.|+++.    +|+..+|..+..++...|++++|++.|++..+.. +.+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            445677888888888887642    4567778888888888888888888888888775 45677888888888888888


Q ss_pred             HHHHHHHHHHHHcCCC--------------Cc-HhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          132 LAALNLLNHMKEVGFD--------------PS-VLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       132 ~~a~~~~~~~~~~~~~--------------~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      ++|++.|++.......              ++ ..++..+..++.+.|++++|...+....+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            8888888887653110              00 133445555666777777777777666554

>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=98.83  E-value=6.5e-06  Score=61.00  Aligned_cols=224  Identities=11%  Similarity=0.008  Sum_probs=121.4

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHHH
Q 043969           47 SYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNILL  122 (300)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (300)
                      .+..+...+...+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   ++.....+.
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            34445555555566666666666665554   33444444444443    345666666666655543   222222222


Q ss_pred             HHHh----cCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHH----hCCCHHHHHHHHHHHHhCCCCCccccHHHHHHH
Q 043969          123 HVLG----KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLS----RAGNLDACKYFFDEMANKGCMPDVVCYTVMITS  194 (300)
Q Consensus       123 ~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  194 (300)
                      ..+.    ...+.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+...
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~  151 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhh
Confidence            2222    234556666666666555421   11122222222    233445555555555443   244455555555


Q ss_pred             HHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 043969          195 YIA----AGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM----AGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLR  266 (300)
Q Consensus       195 ~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  266 (300)
                      +..    ..+...+...++...+.|   +......+...|..    ..++++|...|+...+.|   ++..+..|...|.
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~  225 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQY  225 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             hccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHH
Confidence            554    345666777777666654   45555555555544    567888888888887765   4455556666665


Q ss_pred             h----cCCHHHHHHHHHHHHHcChHH
Q 043969          267 N----AGKLAEAHEVIRHMVEKGKYI  288 (300)
Q Consensus       267 ~----~g~~~~a~~~~~~~~~~~~~~  288 (300)
                      +    ..+.++|.++|++..+.|.-.
T Consensus       226 ~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         226 NGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             cCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            4    337778888888888877433

>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=98.82  E-value=7.1e-06  Score=60.80  Aligned_cols=226  Identities=9%  Similarity=-0.070  Sum_probs=161.0

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHc----cCcHHHHHHHHHHhhhCCCCCCHhhHH
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLG----IRQYKLIEWVYQQMSDEGYAPDILTYN   84 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (300)
                      |+..+..|...+-+.+|+++|++.|++..+.|   +...+..|...+..    ..+...|...+....+.+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            56677788888888999999999999987765   34455567777765    568999999999988876   344444


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH----hcCCChHHHHHHHHHHHHcCCCCcHhhHHHH
Q 043969           85 IVMCAKYR----LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL----GKGDKPLAALNLLNHMKEVGFDPSVLHFTTL  156 (300)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (300)
                      .+...+..    ..+.+.|...++.....|.   ......+...+    ........+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            45444433    4678899999999888763   22222232222    2345566777777776664   355666777


Q ss_pred             HHHHHh----CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          157 MDGLSR----AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIA----AGELEKAQDLFDGMITKGQLPNVFTYNSMIR  228 (300)
Q Consensus       157 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  228 (300)
                      ...+..    ..+...+...++...+.|   +......+...+..    ..++++|...|.+..+.|   +...+..|..
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            777765    567778888888887765   55556666655655    568999999999999886   5667777777


Q ss_pred             HHhc----cCCHHHHHHHHHHHHHCCCC
Q 043969          229 GFCM----AGKFDEACTMMKEMESRGCN  252 (300)
Q Consensus       229 ~~~~----~~~~~~a~~~~~~~~~~~~~  252 (300)
                      .|.+    ..+.++|.+.|++..+.|..
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            7765    34788999999999887743

>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=98.81  E-value=2.5e-07  Score=59.59  Aligned_cols=91  Identities=9%  Similarity=-0.137  Sum_probs=51.4

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ...+...|++++|+..|++.++..+. +...|..+..++...|++++|+..+....+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            44455556666666666665554322 45555555556666666666666665555543 34555555555566666666


Q ss_pred             HHHHHHHHHHHHc
Q 043969          132 LAALNLLNHMKEV  144 (300)
Q Consensus       132 ~~a~~~~~~~~~~  144 (300)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666655543

>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=98.78  E-value=2.5e-07  Score=59.58  Aligned_cols=105  Identities=11%  Similarity=-0.070  Sum_probs=87.6

Q ss_pred             HHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc
Q 043969           14 NILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL   93 (300)
Q Consensus        14 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (300)
                      ..-...+.+.|++++|+..|.+....+ +-+...|..+..++...|++++|+..++...+..+. +...|..+..++...
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHc
Confidence            344567888999999999999998875 555668999999999999999999999999988644 888999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHhHHHHH
Q 043969           94 GKLDQFHRLLDEMGRSGFSPDFHTYNIL  121 (300)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (300)
                      |++++|+..++...+.. |.+...+..+
T Consensus        85 ~~~~~A~~~~~~a~~~~-p~~~~~~~~l  111 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHE-ANNPQLKEGL  111 (117)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            99999999999998764 3344444433

>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=98.74  E-value=1.4e-07  Score=67.08  Aligned_cols=98  Identities=10%  Similarity=-0.047  Sum_probs=45.5

Q ss_pred             cCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHH
Q 043969           43 PFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILL  122 (300)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (300)
                      |+...+......+.+.|++++|+..|++.++..+. +...|..+..+|.+.|++++|+..++...+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            33334444444455555555555555544444322 44444444455555555555555555544332 22334444444


Q ss_pred             HHHhcCCChHHHHHHHHHHH
Q 043969          123 HVLGKGDKPLAALNLLNHMK  142 (300)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~  142 (300)
                      .+|.+.|++++|+..|++..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            45555555555555444443

>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=98.73  E-value=1.4e-07  Score=67.07  Aligned_cols=101  Identities=7%  Similarity=-0.122  Sum_probs=89.4

Q ss_pred             CCchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHH
Q 043969            7 PTTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIV   86 (300)
Q Consensus         7 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (300)
                      +|+...+......+.+.|++++|+..|.+....+ +.+...|..+..+|.+.|++++|+..|+..++..+. +..+|..+
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~l   78 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   78 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHH
Confidence            4788888889999999999999999999988775 456668999999999999999999999999987533 67889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC
Q 043969           87 MCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      ..++...|++++|+..|++....
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999987653

>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=98.72  E-value=5.1e-07  Score=61.62  Aligned_cols=93  Identities=13%  Similarity=-0.053  Sum_probs=61.1

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCC
Q 043969           50 AILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGD  129 (300)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (300)
                      .....+.+.|++++|+..|++.++..+. +...|..+..++...|++++|...|+...+.. +.+..+|..+..++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcC
Confidence            3445566667777777777777666433 56666666667777777777777777766654 344566666667777777


Q ss_pred             ChHHHHHHHHHHHHc
Q 043969          130 KPLAALNLLNHMKEV  144 (300)
Q Consensus       130 ~~~~a~~~~~~~~~~  144 (300)
                      ++++|...+++....
T Consensus        93 ~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          93 KFRAALRDYETVVKV  107 (159)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc
Confidence            777777777776665

>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=98.72  E-value=3.2e-07  Score=62.64  Aligned_cols=106  Identities=11%  Similarity=-0.025  Sum_probs=88.4

Q ss_pred             HHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           13 FNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      +......+.+.|++++|+..|.+....+ +-+...|..+..++...|++++|...|+++++..+. +..+|..+..++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHH
Confidence            4445567889999999999999998875 456669999999999999999999999999987644 77899999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHH
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNIL  121 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (300)
                      .|++++|...+++..... +-+...+..+
T Consensus        91 ~g~~~eA~~~~~~a~~~~-p~~~~~~~~l  118 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK-PHDKDAKMKY  118 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            999999999999998874 3344444443

>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=98.66  E-value=3.1e-07  Score=58.59  Aligned_cols=92  Identities=14%  Similarity=0.028  Sum_probs=68.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNA  268 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  268 (300)
                      -.+...+.+.|++++|+..|++..+.... +..+|..+..++.+.|++++|+..+++..+.. +.+...+..+..+|...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            34555677788888888888887776432 67778888888888888888888888877752 33467777777788888


Q ss_pred             CCHHHHHHHHHHHH
Q 043969          269 GKLAEAHEVIRHMV  282 (300)
Q Consensus       269 g~~~~a~~~~~~~~  282 (300)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            88888888887753

>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=98.57  E-value=6.1e-07  Score=58.03  Aligned_cols=94  Identities=12%  Similarity=0.066  Sum_probs=55.8

Q ss_pred             HHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCc---HHHHHHHHHHhhhCCCCCC-HhhHHHHHHHH
Q 043969           15 ILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQ---YKLIEWVYQQMSDEGYAPD-ILTYNIVMCAK   90 (300)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~   90 (300)
                      .+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|+.+++++.+....|+ ..++..+..+|
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            45555666666777777776666654 3444566666666655433   3456666666665543332 23555566666


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 043969           91 YRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~  109 (300)
                      .+.|++++|.+.|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6677777777777666665

>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=98.57  E-value=4e-07  Score=58.06  Aligned_cols=87  Identities=10%  Similarity=-0.023  Sum_probs=42.3

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCCh
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKP  131 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (300)
                      ...+.+.|++++|+..|++.++..+. +..+|..+..++.+.|++++|+..+++..+.. |.+...+..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            33444455555555555555544322 34445555555555555555555555544442 23344444455555555555


Q ss_pred             HHHHHHHHH
Q 043969          132 LAALNLLNH  140 (300)
Q Consensus       132 ~~a~~~~~~  140 (300)
                      ++|++.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555444

>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=98.56  E-value=4.1e-07  Score=58.83  Aligned_cols=93  Identities=11%  Similarity=0.106  Sum_probs=41.9

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 043969          155 TLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAG---ELEKAQDLFDGMITKGQLPN-VFTYNSMIRGF  230 (300)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~  230 (300)
                      .+++.+...+++++|++.|+.....+ +.+..++..+..++.+.+   ++++|+.+++++...+..|+ ..++..+..+|
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            34444445555555555555544432 223344444444444322   22345555555444322222 12344445555


Q ss_pred             hccCCHHHHHHHHHHHHH
Q 043969          231 CMAGKFDEACTMMKEMES  248 (300)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~  248 (300)
                      .+.|++++|.+.|+++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            555555555555555554

>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=98.39  E-value=1.9e-05  Score=54.11  Aligned_cols=76  Identities=9%  Similarity=-0.008  Sum_probs=59.5

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNP-NFLVYNTLVSNL  265 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~  265 (300)
                      +|+.+..+|.+.|++++|+..++..++... .+..++..+..+|...|++++|...|++..+.  .| +......+-.+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccc-cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            567788888999999999999999888643 37888999999999999999999999999885  34 444444444443

>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=98.38  E-value=3.9e-06  Score=54.71  Aligned_cols=95  Identities=14%  Similarity=0.234  Sum_probs=53.9

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC-----HHHHHHH
Q 043969          153 FTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQL-PN-----VFTYNSM  226 (300)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~-----~~~~~~l  226 (300)
                      +..+...+.+.|++++|...|....+.+ +.+...+..+..+|.+.|++++|+..+.++++.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3345556666666666666666666553 234555666666666666666666666665542110 01     1345555


Q ss_pred             HHHHhccCCHHHHHHHHHHHHH
Q 043969          227 IRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      ...+...+++++|.+.|+....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            5566666666666666665554

>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=98.35  E-value=1.1e-05  Score=55.41  Aligned_cols=62  Identities=5%  Similarity=-0.158  Sum_probs=42.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      +|+.+..+|.+.|++++|+..++...... |.++.++..+..++...|++++|...|+...+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            45556666777777777777777776654 445666777777777777777777777777665

>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=98.34  E-value=0.00025  Score=53.85  Aligned_cols=177  Identities=9%  Similarity=0.007  Sum_probs=92.5

Q ss_pred             CchHHHHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHH
Q 043969            8 TTARTFNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVM   87 (300)
Q Consensus         8 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (300)
                      |+..-...+...|.+.|.++.|..++..+.         -|..++..+.+.++++.|.+++...-      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            444444556667777788888888877653         34566777777788877777665431      556777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHH
Q 043969           88 CAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLD  167 (300)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (300)
                      ..+.+......+     .+.......++.....++..|...|.+++...+++..... -+.+...++.++..|++.+ .+
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQ  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hH
Confidence            777766655433     1222223345555666777777777777777777766543 2445566677777777654 33


Q ss_pred             HHHHHHHHHHhCCCCC--------ccccHHHHHHHHHhcCCHHHHHHH
Q 043969          168 ACKYFFDEMANKGCMP--------DVVCYTVMITSYIAAGELEKAQDL  207 (300)
Q Consensus       168 ~a~~~~~~~~~~~~~~--------~~~~~~~li~~~~~~~~~~~a~~~  207 (300)
                      +..+.+...... ..+        ....|..++-.|.+.|+++.|..+
T Consensus       150 kl~e~l~~~s~~-y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~  196 (336)
T d1b89a_         150 KMREHLELFWSR-VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  196 (336)
T ss_dssp             HHHHHHHHHSTT-SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHhcccc-CCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHH
Confidence            333333332111 111        122344555555555555555443

>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=98.24  E-value=1.3e-05  Score=52.19  Aligned_cols=93  Identities=10%  Similarity=0.096  Sum_probs=47.3

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC-----HhHHHHHHH
Q 043969           50 AILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGF-SPD-----FHTYNILLH  123 (300)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~-----~~~~~~l~~  123 (300)
                      .+...+...|++++|+..|++.++..+. +...+..+..+|.+.|++++|++.++.+.+..- .+.     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555554322 455555555555555555555555555433210 000     124444555


Q ss_pred             HHhcCCChHHHHHHHHHHHH
Q 043969          124 VLGKGDKPLAALNLLNHMKE  143 (300)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~  143 (300)
                      .+...+++++|+..|+....
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            55555666666666655544

>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=98.18  E-value=3.7e-05  Score=52.62  Aligned_cols=79  Identities=11%  Similarity=0.104  Sum_probs=57.7

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043969          185 VVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSN  264 (300)
Q Consensus       185 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  264 (300)
                      ...|..+..++.+.|++++|+..+.+..+... .+..+|..+..++...|++++|...|++..+.. +.+......+..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~  154 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            44566677788888888888888888887643 377888888888888888888888888888752 2244444444443


Q ss_pred             H
Q 043969          265 L  265 (300)
Q Consensus       265 ~  265 (300)
                      .
T Consensus       155 ~  155 (169)
T d1ihga1         155 K  155 (169)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.17  E-value=8.1e-05  Score=49.90  Aligned_cols=62  Identities=19%  Similarity=0.147  Sum_probs=45.6

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESR  249 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (300)
                      +|+.+..+|.+.|++++|++.++...+... .+..+|..+..++...|++++|...|+...+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            556677777777788888877777776532 36777777777777788888888777777764

>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=98.17  E-value=0.00013  Score=49.68  Aligned_cols=76  Identities=12%  Similarity=0.059  Sum_probs=58.0

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 043969          187 CYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSN  264 (300)
Q Consensus       187 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  264 (300)
                      .|+.+..+|.+.|++++|+..+....+... .+..+|..+..++...|++++|...|++..+.. +.+......+-..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~  141 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhccc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            466677888899999999999999888643 478888889999999999999999999988752 2234444444333

>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=98.16  E-value=2.4e-05  Score=53.57  Aligned_cols=81  Identities=9%  Similarity=-0.092  Sum_probs=53.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHH
Q 043969           79 DILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMD  158 (300)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (300)
                      ....+..+..++.+.|++++|+..+..+.+.. +.+..+|..+..++...|++++|+..|+...+.. +.+......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34456666677777777777777777777664 4456677777777777777777777777777753 334444555444


Q ss_pred             HHH
Q 043969          159 GLS  161 (300)
Q Consensus       159 ~~~  161 (300)
                      +..
T Consensus       154 ~~~  156 (169)
T d1ihga1         154 VKQ  156 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.16  E-value=1.6e-06  Score=70.62  Aligned_cols=167  Identities=11%  Similarity=-0.027  Sum_probs=92.6

Q ss_pred             HHHHHHHHHHhhhCCCCCCHhhHHHHHHHH--HhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHH
Q 043969           61 YKLIEWVYQQMSDEGYAPDILTYNIVMCAK--YRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLL  138 (300)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  138 (300)
                      +..+.+.++...+....++..-....+..+  ...+.++.++..+....+.. +++...+..+...+.+.|+.+.|...+
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------C
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            455666677666554344433332222222  22345555555554443332 345566777778888889999988887


Q ss_pred             HHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 043969          139 NHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLP  218 (300)
Q Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  218 (300)
                      .......   ...++..+...+...|++++|...|++..+.. +-+...|+.+...+...|+..+|...|.+..... +|
T Consensus       144 ~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~  218 (497)
T d1ya0a1         144 SSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FP  218 (497)
T ss_dssp             CHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BC
T ss_pred             HHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CC
Confidence            7765431   23567778888999999999999999988763 3356789999999999999999999999988763 46


Q ss_pred             CHHHHHHHHHHHhcc
Q 043969          219 NVFTYNSMIRGFCMA  233 (300)
Q Consensus       219 ~~~~~~~l~~~~~~~  233 (300)
                      ...++..|...+.+.
T Consensus       219 ~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         219 FPAASTNLQKALSKA  233 (497)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            788888888776543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.14  E-value=5.6e-05  Score=52.12  Aligned_cols=122  Identities=11%  Similarity=0.108  Sum_probs=81.9

Q ss_pred             HHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHH
Q 043969          123 HVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELE  202 (300)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  202 (300)
                      ......|++++|...|.+.....  +....     .. ...+.+  +...-..+...    ....+..+...+...|+++
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~--rG~~l-----~~-~~~~~w--~~~~r~~l~~~----~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREW--RGPVL-----DD-LRDFQF--VEPFATALVED----KVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC--CSSTT-----GG-GTTSTT--HHHHHHHHHHH----HHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--ccccc-----cc-CcchHH--HHHHHHHHHHH----HHHHHHHHHHHHHHCCCch
Confidence            45677888888888888877641  11100     00 000111  11111111111    2345777888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 043969          203 KAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMES-----RGCNPNFLVYN  259 (300)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  259 (300)
                      +|+..++++.+... -+...|..++.+|...|+..+|++.|+++..     .|+.|+..+-.
T Consensus        85 ~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          85 AVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             HHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            99999999988744 4888999999999999999999999998753     58999876533

>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=98.14  E-value=0.00012  Score=48.98  Aligned_cols=62  Identities=15%  Similarity=0.021  Sum_probs=30.6

Q ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          117 TYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      +|..+..+|.+.|++++|++.+....+.. |.+..+|..+..++...|++++|...|+...+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444445555555555555555554442 234444555555555555555555555555443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.11  E-value=6.9e-05  Score=51.66  Aligned_cols=69  Identities=16%  Similarity=0.146  Sum_probs=37.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHH-----cCCCCcHh
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKE-----VGFDPSVL  151 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~  151 (300)
                      .+..+...+...|++++|+..++.+.... +.+...|..++.++.+.|+..+|++.|+++..     .|+.|+..
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            34445555555566666666665555543 34555556666666666666666665555422     35555543

>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=98.05  E-value=6.3e-05  Score=51.33  Aligned_cols=62  Identities=10%  Similarity=-0.098  Sum_probs=39.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           82 TYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      .|..+..++.+.|++++|+..++...... +.+...|..+..++...|++++|...|++..+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44445566666667777766666666553 445566666666666677777777777666654

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=3.3e-06  Score=68.80  Aligned_cols=111  Identities=8%  Similarity=-0.033  Sum_probs=43.4

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHH
Q 043969           80 ILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDG  159 (300)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (300)
                      ...+..+...+.+.|+.++|...+.......   ...++..+...+...|++++|...|++..+.. |.+...|+.+...
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~  195 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAIL  195 (497)
T ss_dssp             -----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHH
Confidence            3344444445555555555555444433221   12334445555555555555555555555542 2334455555555


Q ss_pred             HHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHH
Q 043969          160 LSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSY  195 (300)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (300)
                      +...|+..+|...|.+..... +|...++..|...+
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            555555555555555555442 33444445554444

>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=98.04  E-value=6.9e-06  Score=60.66  Aligned_cols=122  Identities=8%  Similarity=-0.045  Sum_probs=68.5

Q ss_pred             HHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HhHHHHHHHHHhcCCChHH
Q 043969           55 LLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRLGKLDQFHRLLDEMGRSGFSPD-FHTYNILLHVLGKGDKPLA  133 (300)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  133 (300)
                      ..+.|++++|+..+++.++..+. |...+..+...++..|++++|.+.++...+..  |+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHH
Confidence            44667788888888877777543 67777777788888888888888887776653  33 3333333333322222222


Q ss_pred             HHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          134 ALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      +..-.......+-+++...+......+...|+.++|...++...+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            1111111011111222233344455566777777777777776554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.03  E-value=3.5e-05  Score=51.18  Aligned_cols=73  Identities=7%  Similarity=-0.140  Sum_probs=46.2

Q ss_pred             hhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHcc----------CcHHHHHHHHHHhhhCCCCCCHhhHHHHHHH
Q 043969           20 CGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGI----------RQYKLIEWVYQQMSDEGYAPDILTYNIVMCA   89 (300)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (300)
                      |-+.+.+++|++.|+.....+ +.+..++..+..++...          +.+++|+..|++.++..+. +..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHH
Confidence            345567888888888877764 44555777777666643          3346677777777765433 56666666666


Q ss_pred             HHhcC
Q 043969           90 KYRLG   94 (300)
Q Consensus        90 ~~~~~   94 (300)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            65443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.97  E-value=0.0017  Score=49.19  Aligned_cols=238  Identities=11%  Similarity=0.077  Sum_probs=148.0

Q ss_pred             HHHHHHHhhccccHHHHHHHHHHhhhcCCCcCHHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHh
Q 043969           13 FNILICTCGEVGLARKVVERFIKSKLFNFRPFKNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYR   92 (300)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (300)
                      |..++..+.+.++++.|.+.+.+.      -+..+|..+...+.+..+...+.     +.......++.....++..|-.
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~  111 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQ-----MCGLHIVVHADELEELINYYQD  111 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHH
Confidence            345667777778888887777654      23448888888888877765542     2233334466667788999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCcH----------hhHHHHHHHHHh
Q 043969           93 LGKLDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEVGFDPSV----------LHFTTLMDGLSR  162 (300)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~  162 (300)
                      .|.+++...+++...... +.+...++.++..|++.+ .++   +.+.+...+..-+.          ..|..++-.|.+
T Consensus       112 ~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~k---l~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~  186 (336)
T d1b89a_         112 RGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQK---MREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDK  186 (336)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHH---HHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHH---HHHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHh
Confidence            999999999999876542 567778899999998864 344   34444332111111          113344455555


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 043969          163 AGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTM  242 (300)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (300)
                      .|+++.|..+.   .+.  .++..-....+..+.+..+.+...++.....+.  .|  ...+.++......-+..+..+.
T Consensus       187 ~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~  257 (336)
T d1b89a_         187 YEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNY  257 (336)
T ss_dssp             TTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHH
T ss_pred             cCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHH
Confidence            55555554332   222  345555566777788888888777777666553  23  3345555555555555555544


Q ss_pred             HH-------------HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 043969          243 MK-------------EMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVI  278 (300)
Q Consensus       243 ~~-------------~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  278 (300)
                      ++             ...+.|   +....+++...|...++++.-++..
T Consensus       258 ~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         258 FSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            44             333333   4568889999999999976544433

>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=97.92  E-value=1.5e-05  Score=58.78  Aligned_cols=52  Identities=12%  Similarity=0.090  Sum_probs=26.5

Q ss_pred             cCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhC
Q 043969          127 KGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANK  179 (300)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (300)
                      +.|++++|+..+++..+.. |.+...+..+...++..|++++|...++...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3455555555555555442 334445555555555555555555555555443

>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=97.88  E-value=6.2e-05  Score=49.95  Aligned_cols=71  Identities=7%  Similarity=-0.157  Sum_probs=47.0

Q ss_pred             HccCcHHHHHHHHHHhhhCCCCCCHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 043969           56 LGIRQYKLIEWVYQQMSDEGYAPDILTYNIVMCAKYRL----------GKLDQFHRLLDEMGRSGFSPDFHTYNILLHVL  125 (300)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (300)
                      -+.+.+++|...|+...+..+. +..++..+..++...          +.+++|+..|++..+.. |.+..+|..+..+|
T Consensus         8 ~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            3456688888899888887533 677777777776643          34466777777776654 44556666666665


Q ss_pred             hcC
Q 043969          126 GKG  128 (300)
Q Consensus       126 ~~~  128 (300)
                      ...
T Consensus        86 ~~~   88 (145)
T d1zu2a1          86 TSF   88 (145)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.80  E-value=0.00049  Score=46.06  Aligned_cols=92  Identities=20%  Similarity=0.231  Sum_probs=57.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCC-CC----------CHHHHHHHHHHHhccCCHHHHHHHHHHHHHC-----CCCCC--
Q 043969          193 TSYIAAGELEKAQDLFDGMITKGQ-LP----------NVFTYNSMIRGFCMAGKFDEACTMMKEMESR-----GCNPN--  254 (300)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~-~p----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~--  254 (300)
                      ..+...|++++|+..|.+..+... .|          ....|+.+..+|...|++++|..-+++....     ...++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            344455667777766666654211 01          1346777777778888888877777776542     11111  


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 043969          255 ---FLVYNTLVSNLRNAGKLAEAHEVIRHMVEK  284 (300)
Q Consensus       255 ---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  284 (300)
                         ...+..+..+|...|++++|.+.|++.++.
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence               124556677788888888888888887653

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.53  E-value=0.0013  Score=43.86  Aligned_cols=56  Identities=13%  Similarity=-0.011  Sum_probs=29.8

Q ss_pred             HHHHHccCcHHHHHHHHHHhhhCCCC-CC----------HhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 043969           52 LHALLGIRQYKLIEWVYQQMSDEGYA-PD----------ILTYNIVMCAKYRLGKLDQFHRLLDEMG  107 (300)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (300)
                      ...+...|++++|++.|++.++.... |+          ..+|+.+..+|...|++++|...++...
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            33444556666666666666542111 11          2345555566666666666665555543

>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=97.39  E-value=0.0059  Score=39.26  Aligned_cols=84  Identities=6%  Similarity=-0.149  Sum_probs=50.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCC
Q 043969          199 GELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM----AGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRN----AGK  270 (300)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~  270 (300)
                      .+.++|.+++++..+.|   +......|...|..    ..+.++|.++|++..+.|   ++.....|...|..    ..+
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---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            45666677776666654   34444445444443    346777777777777765   33344445445544    357


Q ss_pred             HHHHHHHHHHHHHcChHH
Q 043969          271 LAEAHEVIRHMVEKGKYI  288 (300)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~  288 (300)
                      .++|.++|++..+.|...
T Consensus       111 ~~~A~~~~~~Aa~~G~~~  128 (133)
T d1klxa_         111 EKQAVKTFEKACRLGSED  128 (133)
T ss_dssp             HHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHCCCHH
Confidence            777888888777777443

>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=97.37  E-value=0.00087  Score=40.49  Aligned_cols=61  Identities=15%  Similarity=0.071  Sum_probs=30.4

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhhhCC-----CCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 043969           49 NAILHALLGIRQYKLIEWVYQQMSDEG-----YAP-DILTYNIVMCAKYRLGKLDQFHRLLDEMGRS  109 (300)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (300)
                      -.+...+.+.|+++.|...|++..+..     ..+ ...+++.+..++.+.|++++|+..++++.+.
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            344555555555555555555554321     011 1234555555555555555555555555544

>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=97.28  E-value=0.0016  Score=39.30  Aligned_cols=77  Identities=5%  Similarity=-0.241  Sum_probs=58.5

Q ss_pred             chHHHHHHHHHhhccccHHHHHHHHHHhhhcC-----CCcC-HHHHHHHHHHHHccCcHHHHHHHHHHhhhCCCCCCHhh
Q 043969            9 TARTFNILICTCGEVGLARKVVERFIKSKLFN-----FRPF-KNSYNAILHALLGIRQYKLIEWVYQQMSDEGYAPDILT   82 (300)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (300)
                      +...+-.+...+.+.|++++|++.|++.....     ..++ ..+++.+..++.+.|++++|...++++++..+. +..+
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a   82 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRA   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHH
Confidence            34445567888999999999999999875531     1222 347899999999999999999999999987543 4555


Q ss_pred             HHHH
Q 043969           83 YNIV   86 (300)
Q Consensus        83 ~~~l   86 (300)
                      ++.+
T Consensus        83 ~~Nl   86 (95)
T d1tjca_          83 NGNL   86 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=97.06  E-value=0.014  Score=37.35  Aligned_cols=48  Identities=10%  Similarity=-0.003  Sum_probs=25.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHCC
Q 043969          200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCM----AGKFDEACTMMKEMESRG  250 (300)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  250 (300)
                      +.++|.++|++..+.|   ++.....|...|..    ..+.++|.++++...+.|
T Consensus        74 d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          74 DLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            4566666666665554   33334444444433    345666666666666554

>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=96.32  E-value=0.051  Score=33.84  Aligned_cols=138  Identities=11%  Similarity=0.052  Sum_probs=70.0

Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCcHhhHHHHHHHHHhCCCHHHHHHHHHHHHhCCCCCccccHHHHHHHHHhcCCHHHHH
Q 043969          126 GKGDKPLAALNLLNHMKEVGFDPSVLHFTTLMDGLSRAGNLDACKYFFDEMANKGCMPDVVCYTVMITSYIAAGELEKAQ  205 (300)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  205 (300)
                      ...|..++..+++.+.....   +..-||.++--....-+-+....+++.+-+.   .|.          ..+++.....
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHH
Confidence            33566666666666665532   3444555554444444555555555544332   111          1122222222


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 043969          206 DLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKG  285 (300)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  285 (300)
                      ..+-.+-     .+...++..+......|+-++..++.+++.+. -.|++...-.+..+|.+.|...++-+++.+..++|
T Consensus        77 ~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            2222111     13344555566666666666666666665553 34555666666666666666666666666666666

>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=95.87  E-value=0.09  Score=32.71  Aligned_cols=62  Identities=11%  Similarity=0.172  Sum_probs=28.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCC
Q 043969          189 TVMITSYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGC  251 (300)
Q Consensus       189 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (300)
                      +..+..+.+.|+-+.-.++++.+.+. -+|++...-.+..+|.+.|...++.+++.+..+.|+
T Consensus        90 dlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          90 NKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            33344444444444444444444332 233444444444555555555555555554444443

>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=94.89  E-value=0.17  Score=29.75  Aligned_cols=63  Identities=10%  Similarity=0.238  Sum_probs=40.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 043969          200 ELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEACTMMKEMESRGCNPNFLVYNTLVS  263 (300)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  263 (300)
                      +.-++.+-++.+......|++......+++|.+.+|+..|.++++-.+.+ ..++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            44556666666666667777777777777777777777777777766653 2223445555544

>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=94.62  E-value=0.25  Score=30.63  Aligned_cols=47  Identities=6%  Similarity=0.076  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 043969          201 LEKAQDLFDGMITKGQLPN-VFTYNSMIRGFCMAGKFDEACTMMKEMES  248 (300)
Q Consensus       201 ~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (300)
                      .++++.+++++.+.+. .+ ...+-.+.-+|.+.|++++|.+.++.+.+
T Consensus        54 ~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          54 ERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3445555554443321 11 12333344444455555555555555544

>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=93.78  E-value=0.32  Score=28.53  Aligned_cols=49  Identities=10%  Similarity=0.139  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHhHHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 043969           96 LDQFHRLLDEMGRSGFSPDFHTYNILLHVLGKGDKPLAALNLLNHMKEV  144 (300)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (300)
                      .-++.+-+..+....+.|++.+....+.+|.+.+++..|.++++.++..
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3345555555555566666666666666666666666666666666544

>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=89.68  E-value=1.4  Score=27.19  Aligned_cols=21  Identities=19%  Similarity=0.339  Sum_probs=9.3

Q ss_pred             HHHHhCCCHHHHHHHHHHHHh
Q 043969          158 DGLSRAGNLDACKYFFDEMAN  178 (300)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~  178 (300)
                      -+|.+.|++++|.+.++.+.+
T Consensus        81 v~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          81 IGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHc
Confidence            344444444444444444443

>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=87.87  E-value=4.7  Score=31.07  Aligned_cols=125  Identities=11%  Similarity=0.101  Sum_probs=77.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCCccccHHHHHH----HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCHHHH
Q 043969          164 GNLDACKYFFDEMANKGCMPDVVCYTVMIT----SYIAAGELEKAQDLFDGMITKGQLPNVFTYNSMIRGFCMAGKFDEA  239 (300)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~----~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (300)
                      .+.+.+...+........ .+..-+..+-.    .....+..+.+...+......+.  +.......+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHH
Confidence            466777777766654321 12222222222    22234566777777777665533  445445556666778899999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcChHHHHHH
Q 043969          240 CTMMKEMESRGCNPNFLVYNTLVSNLRNAGKLAEAHEVIRHMVEKGKYIHLVS  292 (300)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~l~~  292 (300)
                      ...+..|.... .......--+.+++...|+.+.|...|..+....+|-..+.
T Consensus       305 ~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~~fYG~LA  356 (450)
T d1qsaa1         305 NTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYPMVA  356 (450)
T ss_dssp             HHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHHHHH
T ss_pred             HHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCCChHHHHH
Confidence            99988775431 11233334456888999999999999999987665655544